printf ' ' | fink --no-use-binary-dist --yes --build-as-nobody rebuild coot 2>&1 The package 'coot' will be built without being installed. Reading build dependency for coot-0.8-pre-revision-5067-1... Reading dependency for coot-0.8-pre-revision-5067-1... Reading dependency for coot-shlibs-0.8-pre-revision-5067-1... Reading dependency for coot-dev-0.8-pre-revision-5067-1... Reading build conflict for coot-0.8-pre-revision-5067-1... fink needs help picking an alternative to satisfy a virtual dependency. The candidates: (1) fftw: Discrete Fourier Transform Library (2) fftw-mpi: Discrete Fourier Transform Library Pick one: [1] (assuming default) The package 'boost1.53.python27' will be installed. Reading dependency for boost1.53.python27-1.53.0-2... Reading runtime dependency for boost1.53.python27-1.53.0-2... The package 'ccp4srs-dev' will be installed. Reading dependency for ccp4srs-dev-1.0-1... Reading runtime dependency for ccp4srs-dev-1.0-1... The package 'clipper-dev' will be installed. Reading dependency for clipper-dev-2.1.20130601-103... Reading runtime dependency for clipper-dev-2.1.20130601-103... The package 'libccp4-dev' will be installed. Reading dependency for libccp4-dev-6.4.0-rc1-2... Reading runtime dependency for libccp4-dev-6.4.0-rc1-2... The package 'mmdb-dev' will be installed. Reading dependency for mmdb-dev-1.25.3-102... Reading runtime dependency for mmdb-dev-1.25.3-102... The package 'ssm-dev' will be installed. Reading dependency for ssm-dev-1.3-102... Reading runtime dependency for ssm-dev-1.3-102... The package 'atk1' will be installed. Reading dependency for atk1-1.32.0-1... Reading runtime dependency for atk1-1.32.0-1... The package 'cairo' will be installed. Reading dependency for cairo-1.12.14-1... Reading runtime dependency for cairo-1.12.14-1... The package 'expat1' will be installed. Reading dependency for expat1-2.1.0-1... Reading runtime dependency for expat1-2.1.0-1... The package 'fftw' will be installed. Reading dependency for fftw-2.1.5-1119... Reading runtime dependency for fftw-2.1.5-1119... The package 'fontconfig2-dev' will be installed. Reading dependency for fontconfig2-dev-2.10.2-1... Reading runtime dependency for fontconfig2-dev-2.10.2-1... The package 'freetype219' will be installed. Reading dependency for freetype219-2.4.12-1... Reading runtime dependency for freetype219-2.4.12-1... The package 'freeglut' will be installed. Reading dependency for freeglut-2.8.1-1... Reading runtime dependency for freeglut-2.8.1-1... The package 'giflib' will be installed. Reading dependency for giflib-4.1.6-103... Reading runtime dependency for giflib-4.1.6-103... The package 'glib2-dev' will be installed. Reading dependency for glib2-dev-2.22.4-8... Reading runtime dependency for glib2-dev-2.22.4-8... The package 'glitz' will be installed. Reading dependency for glitz-0.5.6-33... Reading runtime dependency for glitz-0.5.6-33... The package 'goocanvas' will be installed. Reading dependency for goocanvas-0.15-3... Reading runtime dependency for goocanvas-0.15-3... The package 'gmp5' will be installed. Reading dependency for gmp5-6.0.0a-1... Reading runtime dependency for gmp5-6.0.0a-1... The package 'gsl' will be installed. Reading dependency for gsl-1.16-1... Reading runtime dependency for gsl-1.16-1... The package 'gtk+2' will be installed. Reading dependency for gtk+2-2.18.9-11... Reading runtime dependency for gtk+2-2.18.9-11... The package 'gtk+2-dev' will be installed. Reading dependency for gtk+2-dev-2.18.9-11... Reading runtime dependency for gtk+2-dev-2.18.9-11... The package 'gtkglext1' will be installed. Reading dependency for gtkglext1-1.2.0-2... Reading runtime dependency for gtkglext1-1.2.0-2... The package 'guile18' will be installed. Reading dependency for guile18-1.8.8-7... Reading runtime dependency for guile18-1.8.8-7... The package 'guile18-dev' will be installed. Reading dependency for guile18-dev-1.8.8-7... Reading runtime dependency for guile18-dev-1.8.8-7... The package 'guile18-lib' will be installed. Reading dependency for guile18-lib-0.1.6-2... Reading runtime dependency for guile18-lib-0.1.6-2... The package 'guile18-gtk-dev' will be installed. Reading dependency for guile18-gtk-dev-2.1-18... Reading runtime dependency for guile18-gtk-dev-2.1-18... The package 'libart2' will be installed. Reading dependency for libart2-2.3.21-1... Reading runtime dependency for libart2-2.3.21-1... The package 'libcurl4' will be installed. Reading dependency for libcurl4-7.37.1-1+10.8... Reading runtime dependency for libcurl4-7.37.1-1+10.8... The package 'libgettext8-dev' will be installed. Reading dependency for libgettext8-dev-0.18.3.1-2... Reading runtime dependency for libgettext8-dev-0.18.3.1-2... The package 'libglade2' will be installed. Reading dependency for libglade2-2.6.4-7... Reading runtime dependency for libglade2-2.6.4-7... The package 'libgnomecanvas2-dev' will be installed. Reading dependency for libgnomecanvas2-dev-2.26.0-4... Reading runtime dependency for libgnomecanvas2-dev-2.26.0-4... The package 'libjpeg9' will be installed. Reading dependency for libjpeg9-9a-1... Reading runtime dependency for libjpeg9-9a-1... The package 'libpng16' will be installed. Reading dependency for libpng16-1.6.12-1... Reading runtime dependency for libpng16-1.6.12-1... The package 'libtool2' will be installed. Reading dependency for libtool2-2.4.2-3... Reading runtime dependency for libtool2-2.4.2-3... The package 'libxml2' will be installed. Reading dependency for libxml2-2.9.1-3... Reading runtime dependency for libxml2-2.9.1-3... The package 'openldap24-dev' will be installed. Reading dependency for openldap24-dev-2.4.35-1... Reading runtime dependency for openldap24-dev-2.4.35-1... The package 'pango1-xft2-ft219-dev' will be installed. Reading dependency for pango1-xft2-ft219-dev-1.24.5-9... Reading runtime dependency for pango1-xft2-ft219-dev-1.24.5-9... The package 'pixman' will be installed. Reading dependency for pixman-0.32.4-1... Reading runtime dependency for pixman-0.32.4-1... The package 'pkgconfig' will be installed. Reading dependency for pkgconfig-0.28-1... Reading runtime dependency for pkgconfig-0.28-1... The package 'pygtk2-gtk-py27-dev' will be installed. Reading dependency for pygtk2-gtk-py27-dev-2.17.0-4... Reading runtime dependency for pygtk2-gtk-py27-dev-2.17.0-4... The package 'pygobject2-py27-dev' will be installed. Reading dependency for pygobject2-py27-dev-2.20.0-4... Reading runtime dependency for pygobject2-py27-dev-2.20.0-4... The package 'python27' will be installed. Reading dependency for python27-2.7.8-1... Reading runtime dependency for python27-2.7.8-1... The package 'rdkit-dev' will be installed. Reading dependency for rdkit-dev-2014.03.1-3... Reading runtime dependency for rdkit-dev-2014.03.1-3... The package 'rdkit' will be installed. Reading dependency for rdkit-2014.03.1-3... Reading runtime dependency for rdkit-2014.03.1-3... The package 'swig' will be installed. Reading dependency for swig-3.0.0-1... Reading runtime dependency for swig-3.0.0-1... The package 'boost1.53.python27-shlibs' will be installed. Reading dependency for boost1.53.python27-shlibs-1.53.0-2... Reading runtime dependency for boost1.53.python27-shlibs-1.53.0-2... The package 'ccp4srs-shlibs' will be installed. Reading dependency for ccp4srs-shlibs-1.0-1... Reading runtime dependency for ccp4srs-shlibs-1.0-1... The package 'clipper-shlibs' will be installed. Reading dependency for clipper-shlibs-2.1.20130601-103... Reading runtime dependency for clipper-shlibs-2.1.20130601-103... The package 'libccp4-shlibs' will be installed. Reading dependency for libccp4-shlibs-6.4.0-rc1-2... Reading runtime dependency for libccp4-shlibs-6.4.0-rc1-2... The package 'libccp4-lib' will be installed. Reading dependency for libccp4-lib-6.4.0-rc1-2... Reading runtime dependency for libccp4-lib-6.4.0-rc1-2... The package 'mmdb-shlibs' will be installed. Reading dependency for mmdb-shlibs-1.25.3-102... Reading runtime dependency for mmdb-shlibs-1.25.3-102... The package 'ssm-shlibs' will be installed. Reading dependency for ssm-shlibs-1.3-102... Reading runtime dependency for ssm-shlibs-1.3-102... The package 'atk1-shlibs' will be installed. Reading dependency for atk1-shlibs-1.32.0-1... Reading runtime dependency for atk1-shlibs-1.32.0-1... The package 'fftw-shlibs' will be installed. Reading dependency for fftw-shlibs-2.1.5-1119... Reading runtime dependency for fftw-shlibs-2.1.5-1119... The package 'freeglut-shlibs' will be installed. Reading dependency for freeglut-shlibs-2.8.1-1... Reading runtime dependency for freeglut-shlibs-2.8.1-1... The package 'gcc49-shlibs' will be installed. Reading dependency for gcc49-shlibs-4.9.1-1000... Reading runtime dependency for gcc49-shlibs-4.9.1-1000... The package 'giflib-shlibs' will be installed. Reading dependency for giflib-shlibs-4.1.6-103... Reading runtime dependency for giflib-shlibs-4.1.6-103... The package 'glib2-shlibs' will be installed. Reading dependency for glib2-shlibs-2.22.4-8... Reading runtime dependency for glib2-shlibs-2.22.4-8... The package 'goocanvas-shlibs' will be installed. Reading dependency for goocanvas-shlibs-0.15-3... Reading runtime dependency for goocanvas-shlibs-0.15-3... The package 'gmp5-shlibs' will be installed. Reading dependency for gmp5-shlibs-6.0.0a-1... Reading runtime dependency for gmp5-shlibs-6.0.0a-1... The package 'gnome-themes-glossy-p' will be installed. Reading dependency for gnome-themes-glossy-p-0.0-3... Reading runtime dependency for gnome-themes-glossy-p-0.0-3... The package 'gsl-shlibs' will be installed. Reading dependency for gsl-shlibs-1.16-1... Reading runtime dependency for gsl-shlibs-1.16-1... The package 'gtk+2-shlibs' will be installed. Reading dependency for gtk+2-shlibs-2.18.9-11... Reading runtime dependency for gtk+2-shlibs-2.18.9-11... The package 'gtkglext1-shlibs' will be installed. Reading dependency for gtkglext1-shlibs-1.2.0-2... Reading runtime dependency for gtkglext1-shlibs-1.2.0-2... The package 'guile18-gtk' will be installed. Reading dependency for guile18-gtk-2.1-18... Reading runtime dependency for guile18-gtk-2.1-18... The package 'guile18-gtk-shlibs' will be installed. Reading dependency for guile18-gtk-shlibs-2.1-18... Reading runtime dependency for guile18-gtk-shlibs-2.1-18... The package 'guile18-gui' will be installed. Reading dependency for guile18-gui-0.2-1006... Reading runtime dependency for guile18-gui-0.2-1006... The package 'guile18-shlibs' will be installed. Reading dependency for guile18-shlibs-1.8.8-7... Reading runtime dependency for guile18-shlibs-1.8.8-7... The package 'libart2-shlibs' will be installed. Reading dependency for libart2-shlibs-2.3.21-1... Reading runtime dependency for libart2-shlibs-2.3.21-1... The package 'libcurl4-shlibs' will be installed. Reading dependency for libcurl4-shlibs-7.37.1-1+10.8... Reading runtime dependency for libcurl4-shlibs-7.37.1-1+10.8... The package 'libgnomecanvas2-shlibs' will be installed. Reading dependency for libgnomecanvas2-shlibs-2.26.0-4... Reading runtime dependency for libgnomecanvas2-shlibs-2.26.0-4... The package 'libjpeg9-shlibs' will be installed. Reading dependency for libjpeg9-shlibs-9a-1... Reading runtime dependency for libjpeg9-shlibs-9a-1... The package 'libpng16-shlibs' will be installed. Reading dependency for libpng16-shlibs-1.6.12-1... Reading runtime dependency for libpng16-shlibs-1.6.12-1... The package 'librsvg2-gtk' will be installed. Reading dependency for librsvg2-gtk-2.26.3-1... Reading runtime dependency for librsvg2-gtk-2.26.3-1... The package 'libtiff5-shlibs' will be installed. Reading dependency for libtiff5-shlibs-4.0.3-5... Reading runtime dependency for libtiff5-shlibs-4.0.3-5... The package 'libtool2-shlibs' will be installed. Reading dependency for libtool2-shlibs-2.4.2-3... Reading runtime dependency for libtool2-shlibs-2.4.2-3... The package 'libxml2-shlibs' will be installed. Reading dependency for libxml2-shlibs-2.9.1-3... Reading runtime dependency for libxml2-shlibs-2.9.1-3... The package 'openldap24-shlibs' will be installed. Reading dependency for openldap24-shlibs-2.4.35-1... Reading runtime dependency for openldap24-shlibs-2.4.35-1... The package 'pango1-xft2-ft219-shlibs' will be installed. Reading dependency for pango1-xft2-ft219-shlibs-1.24.5-9... Reading runtime dependency for pango1-xft2-ft219-shlibs-1.24.5-9... The package 'pygtk2-gtk-py27' will be installed. Reading dependency for pygtk2-gtk-py27-2.17.0-4... Reading runtime dependency for pygtk2-gtk-py27-2.17.0-4... The package 'raster3d' will be installed. Reading dependency for raster3d-3.0-3-1... Reading runtime dependency for raster3d-3.0-3-1... The package 'rdkit-shlibs' will be installed. Reading dependency for rdkit-shlibs-2014.03.1-3... Reading runtime dependency for rdkit-shlibs-2014.03.1-3... The package 'refmac' will be installed. Reading dependency for refmac-5.7.0032-7... Reading runtime dependency for refmac-5.7.0032-7... The package 'clipper' will be installed. Reading dependency for clipper-2.1.20130601-103... Reading runtime dependency for clipper-2.1.20130601-103... The package 'cairo-shlibs' will be installed. Reading dependency for cairo-shlibs-1.12.14-1... Reading runtime dependency for cairo-shlibs-1.12.14-1... The package 'expat1-shlibs' will be installed. Reading dependency for expat1-shlibs-2.1.0-1... Reading runtime dependency for expat1-shlibs-2.1.0-1... The package 'gcc48-shlibs' will be installed. Reading dependency for gcc48-shlibs-4.8.3-1000... Reading runtime dependency for gcc48-shlibs-4.8.3-1000... The package 'fontconfig2-shlibs' will be installed. Reading dependency for fontconfig2-shlibs-2.10.2-1... Reading runtime dependency for fontconfig2-shlibs-2.10.2-1... The package 'freetype219-shlibs' will be installed. Reading dependency for freetype219-shlibs-2.4.12-1... Reading runtime dependency for freetype219-shlibs-2.4.12-1... The package 'giflib-bin' will be installed. Reading dependency for giflib-bin-4.1.6-103... Reading runtime dependency for giflib-bin-4.1.6-103... The package 'glitz-shlibs' will be installed. Reading dependency for glitz-shlibs-0.5.6-33... Reading runtime dependency for glitz-shlibs-0.5.6-33... The package 'libgmpxx5-shlibs' will be installed. Reading dependency for libgmpxx5-shlibs-6.0.0a-1... Reading runtime dependency for libgmpxx5-shlibs-6.0.0a-1... The package 'guile18-libs' will be installed. Reading dependency for guile18-libs-1.8.8-7... Reading runtime dependency for guile18-libs-1.8.8-7... The package 'gettext-bin' will be installed. Reading dependency for gettext-bin-0.18.3.1-2... Reading runtime dependency for gettext-bin-0.18.3.1-2... The package 'libglade2-shlibs' will be installed. Reading dependency for libglade2-shlibs-2.6.4-7... Reading runtime dependency for libglade2-shlibs-2.6.4-7... The package 'libjpeg-bin' will be installed. Reading dependency for libjpeg-bin-9a-1... Reading runtime dependency for libjpeg-bin-9a-1... The package 'libxml2-bin' will be installed. Reading dependency for libxml2-bin-2.9.1-3... Reading runtime dependency for libxml2-bin-2.9.1-3... The package 'pango1-xft2-ft219' will be installed. Reading dependency for pango1-xft2-ft219-1.24.5-9... Reading runtime dependency for pango1-xft2-ft219-1.24.5-9... The package 'pixman-shlibs' will be installed. Reading dependency for pixman-shlibs-0.32.4-1... Reading runtime dependency for pixman-shlibs-0.32.4-1... The package 'pygobject2-py27' will be installed. Reading dependency for pygobject2-py27-2.20.0-4... Reading runtime dependency for pygobject2-py27-2.20.0-4... The package 'pygobject2-py27-shlibs' will be installed. Reading dependency for pygobject2-py27-shlibs-2.20.0-4... Reading runtime dependency for pygobject2-py27-shlibs-2.20.0-4... The package 'python27-shlibs' will be installed. Reading dependency for python27-shlibs-2.7.8-1... Reading runtime dependency for python27-shlibs-2.7.8-1... The package 'blt-shlibs' will be installed. Reading dependency for blt-shlibs-2.4z-160... Reading runtime dependency for blt-shlibs-2.4z-160... The package 'db53-aes-shlibs' will be installed. Reading dependency for db53-aes-shlibs-5.3.21-2... Reading runtime dependency for db53-aes-shlibs-5.3.21-2... The package 'gdbm3-shlibs' will be installed. Reading dependency for gdbm3-shlibs-1.8.3-4... Reading runtime dependency for gdbm3-shlibs-1.8.3-4... The package 'libffi6-shlibs' will be installed. Reading dependency for libffi6-shlibs-3.1-1... Reading runtime dependency for libffi6-shlibs-3.1-1... The package 'libncursesw5-shlibs' will be installed. Reading dependency for libncursesw5-shlibs-5.9-20110507-1... Reading runtime dependency for libncursesw5-shlibs-5.9-20110507-1... The package 'openssl100-shlibs' will be installed. Reading dependency for openssl100-shlibs-1.0.1h-1... Reading runtime dependency for openssl100-shlibs-1.0.1h-1... The package 'readline6-shlibs' will be installed. Reading dependency for readline6-shlibs-6.3.6-1... Reading runtime dependency for readline6-shlibs-6.3.6-1... The package 'sqlite3-shlibs' will be installed. Reading dependency for sqlite3-shlibs-3.8.3.1-1... Reading runtime dependency for sqlite3-shlibs-3.8.3.1-1... The package 'tcltk' will be installed. Reading dependency for tcltk-8.6.1-104... Reading runtime dependency for tcltk-8.6.1-104... The package 'boost1.53.nopython-shlibs' will be installed. Reading dependency for boost1.53.nopython-shlibs-1.53.0-2... Reading runtime dependency for boost1.53.nopython-shlibs-1.53.0-2... The package 'numpy-py27' will be installed. Reading dependency for numpy-py27-1.8.1-1... Reading runtime dependency for numpy-py27-1.8.1-1... The package 'pil-py27' will be installed. Reading dependency for pil-py27-2.5.1-1... Reading runtime dependency for pil-py27-2.5.1-1... The package 'libpcre1-shlibs' will be installed. Reading dependency for libpcre1-shlibs-8.35-1... Reading runtime dependency for libpcre1-shlibs-8.35-1... The package 'xdg-base' will be installed. Reading dependency for xdg-base-0.8-2... Reading runtime dependency for xdg-base-0.8-2... The package 'gtk2-engines' will be installed. Reading dependency for gtk2-engines-2.18.5-2... Reading runtime dependency for gtk2-engines-2.18.5-2... The package 'libjasper.1-shlibs' will be installed. Reading dependency for libjasper.1-shlibs-1.900.1-5... Reading runtime dependency for libjasper.1-shlibs-1.900.1-5... The package 'shared-mime-info' will be installed. Reading dependency for shared-mime-info-1.3-1... Reading runtime dependency for shared-mime-info-1.3-1... The package 'gtkglarea2-shlibs' will be installed. Reading dependency for gtkglarea2-shlibs-1.99.0-1006... Reading runtime dependency for gtkglarea2-shlibs-1.99.0-1006... The package 'librtmp-shlibs' will be installed. Reading dependency for librtmp-shlibs-2.3-4... Reading runtime dependency for librtmp-shlibs-2.3-4... The package 'libssh2.1-shlibs' will be installed. Reading dependency for libssh2.1-shlibs-1.4.3-1... Reading runtime dependency for libssh2.1-shlibs-1.4.3-1... The package 'librsvg2-shlibs' will be installed. Reading dependency for librsvg2-shlibs-2.26.3-1... Reading runtime dependency for librsvg2-shlibs-2.26.3-1... The package 'libcroco3-shlibs' will be installed. Reading dependency for libcroco3-shlibs-0.6.8-1... Reading runtime dependency for libcroco3-shlibs-0.6.8-1... The package 'libgsf1.114-shlibs' will be installed. Reading dependency for libgsf1.114-shlibs-1.14.21-1... Reading runtime dependency for libgsf1.114-shlibs-1.14.21-1... The package 'libjbig-shlibs' will be installed. Reading dependency for libjbig-shlibs-2.0-1... Reading runtime dependency for libjbig-shlibs-2.0-1... The package 'liblzma5-shlibs' will be installed. Reading dependency for liblzma5-shlibs-5.0.5-2... Reading runtime dependency for liblzma5-shlibs-5.0.5-2... The package 'cyrus-sasl2-shlibs' will be installed. Reading dependency for cyrus-sasl2-shlibs-2.1.25-2... Reading runtime dependency for cyrus-sasl2-shlibs-2.1.25-2... The package 'libthai-shlibs' will be installed. Reading dependency for libthai-shlibs-0.1.20-1... Reading runtime dependency for libthai-shlibs-0.1.20-1... The package 'xft2-shlibs' will be installed. Reading dependency for xft2-shlibs-2.2.0-3... Reading runtime dependency for xft2-shlibs-2.2.0-3... The package 'pycairo-py27' will be installed. Reading dependency for pycairo-py27-1.10.0-4... Reading runtime dependency for pycairo-py27-1.10.0-4... The package 'gd3-shlibs' will be installed. Reading dependency for gd3-shlibs-2.1.0-1... Reading runtime dependency for gd3-shlibs-2.1.0-1... The package 'imagemagick' will be installed. Reading dependency for imagemagick-6.8.8.10-1... Reading runtime dependency for imagemagick-6.8.8.10-1... The package 'fontconfig-config' will be installed. Reading dependency for fontconfig-config-2.10.2-1... Reading runtime dependency for fontconfig-config-2.10.2-1... The package 'tcltk-shlibs' will be installed. Reading dependency for tcltk-shlibs-8.6.1-104... Reading runtime dependency for tcltk-shlibs-8.6.1-104... The package 'nose-py27' will be installed. Reading dependency for nose-py27-1.3.0-1... Reading runtime dependency for nose-py27-1.3.0-1... The package 'cffi-py27' will be installed. Reading dependency for cffi-py27-0.8.6-1... Reading runtime dependency for cffi-py27-0.8.6-1... The package 'lcms2-shlibs' will be installed. Reading dependency for lcms2-shlibs-2.4-2... Reading runtime dependency for lcms2-shlibs-2.4-2... The package 'libwebp5-shlibs' will be installed. Reading dependency for libwebp5-shlibs-0.4.0-1... Reading runtime dependency for libwebp5-shlibs-0.4.0-1... The package 'libdatrie1-shlibs' will be installed. Reading dependency for libdatrie1-shlibs-0.2.8-2... Reading runtime dependency for libdatrie1-shlibs-0.2.8-2... The package 'libthai' will be installed. Reading dependency for libthai-0.1.20-1... Reading runtime dependency for libthai-0.1.20-1... The package 'libmagickcore6.q16.2-shlibs' will be installed. Reading dependency for libmagickcore6.q16.2-shlibs-6.8.8.10-1... Reading runtime dependency for libmagickcore6.q16.2-shlibs-6.8.8.10-1... The package 'fftw3-shlibs' will be installed. Reading dependency for fftw3-shlibs-3.3.4-2... Reading runtime dependency for fftw3-shlibs-3.3.4-2... The package 'libmagickwand6.q16.2-shlibs' will be installed. Reading dependency for libmagickwand6.q16.2-shlibs-6.8.8.10-1... Reading runtime dependency for libmagickwand6.q16.2-shlibs-6.8.8.10-1... The package 'setuptools-tng-py27' will be installed. Reading dependency for setuptools-tng-py27-5.1-1... Reading runtime dependency for setuptools-tng-py27-5.1-1... The package 'pycparser-py27' will be installed. Reading dependency for pycparser-py27-2.10-1... Reading runtime dependency for pycparser-py27-2.10-1... The package 'imagemagick6.q16-common' will be installed. Reading dependency for imagemagick6.q16-common-6.8.8.10-1... Reading runtime dependency for imagemagick6.q16-common-6.8.8.10-1... The following package will be rebuilt: coot The following 147 additional packages will be installed: atk1 atk1-shlibs blt-shlibs boost1.53.nopython-shlibs boost1.53.python27 boost1.53.python27-shlibs cairo cairo-shlibs ccp4srs-dev ccp4srs-shlibs cffi-py27 clipper clipper-dev clipper-shlibs cyrus-sasl2-shlibs db53-aes-shlibs expat1 expat1-shlibs fftw fftw-shlibs fftw3-shlibs fontconfig-config fontconfig2-dev fontconfig2-shlibs freeglut freeglut-shlibs freetype219 freetype219-shlibs gcc48-shlibs gcc49-shlibs gd3-shlibs gdbm3-shlibs gettext-bin giflib giflib-bin giflib-shlibs glib2-dev glib2-shlibs glitz glitz-shlibs gmp5 gmp5-shlibs gnome-themes-glossy-p goocanvas goocanvas-shlibs gsl gsl-shlibs gtk+2 gtk+2-dev gtk+2-shlibs gtk2-engines gtkglarea2-shlibs gtkglext1 gtkglext1-shlibs guile18 guile18-dev guile18-gtk guile18-gtk-dev guile18-gtk-shlibs guile18-gui guile18-lib guile18-libs guile18-shlibs imagemagick imagemagick6.q16-common lcms2-shlibs libart2 libart2-shlibs libccp4-dev libccp4-lib libccp4-shlibs libcroco3-shlibs libcurl4 libcurl4-shlibs libdatrie1-shlibs libffi6-shlibs libgettext8-dev libglade2 libglade2-shlibs libgmpxx5-shlibs libgnomecanvas2-dev libgnomecanvas2-shlibs libgsf1.114-shlibs libjasper.1-shlibs libjbig-shlibs libjpeg-bin libjpeg9 libjpeg9-shlibs liblzma5-shlibs libmagickcore6.q16.2-shlibs libmagickwand6.q16.2-shlibs libncursesw5-shlibs libpcre1-shlibs libpng16 libpng16-shlibs librsvg2-gtk librsvg2-shlibs librtmp-shlibs libssh2.1-shlibs libthai libthai-shlibs libtiff5-shlibs libtool2 libtool2-shlibs libwebp5-shlibs libxml2 libxml2-bin libxml2-shlibs mmdb-dev mmdb-shlibs nose-py27 numpy-py27 openldap24-dev openldap24-shlibs openssl100-shlibs pango1-xft2-ft219 pango1-xft2-ft219-dev pango1-xft2-ft219-shlibs pil-py27 pixman pixman-shlibs pkgconfig pycairo-py27 pycparser-py27 pygobject2-py27 pygobject2-py27-dev pygobject2-py27-shlibs pygtk2-gtk-py27 pygtk2-gtk-py27-dev python27 python27-shlibs raster3d rdkit rdkit-dev rdkit-shlibs readline6-shlibs refmac setuptools-tng-py27 shared-mime-info sqlite3-shlibs ssm-dev ssm-shlibs swig tcltk tcltk-shlibs xdg-base xft2-shlibs Do you want to continue? [Y/n] (assuming default) curl --connect-timeout 30 -f -L -A 'fink/0.37.0' -O http://distfiles.master.finkmirrors.net/distfiles/coot-0.8-pre-revision-5067.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 14.0M 0 93874 0 0 166k 0 0:01:26 --:--:-- 0:01:26 166k 5 14.0M 5 812k 0 0 545k 0 0:00:26 0:00:01 0:00:25 544k 12 14.0M 12 1870k 0 0 746k 0 0:00:19 0:00:02 0:00:17 746k 15 14.0M 15 2283k 0 0 646k 0 0:00:22 0:00:03 0:00:19 646k 22 14.0M 22 3188k 0 0 709k 0 0:00:20 0:00:04 0:00:16 709k 30 14.0M 30 4458k 0 0 811k 0 0:00:17 0:00:05 0:00:12 883k 39 14.0M 39 5702k 0 0 800k 0 0:00:17 0:00:07 0:00:10 868k 41 14.0M 41 6010k 0 0 802k 0 0:00:17 0:00:07 0:00:10 830k 47 14.0M 47 6848k 0 0 806k 0 0:00:17 0:00:08 0:00:09 920k 53 14.0M 53 7678k 0 0 808k 0 0:00:17 0:00:09 0:00:08 898k 59 14.0M 59 8573k 0 0 817k 0 0:00:17 0:00:10 0:00:07 823k 59 14.0M 59 8580k 0 0 743k 0 0:00:19 0:00:11 0:00:08 651k 66 14.0M 66 9547k 0 0 764k 0 0:00:18 0:00:12 0:00:06 707k 72 14.0M 72 10.1M 0 0 768k 0 0:00:18 0:00:13 0:00:05 703k 78 14.0M 78 10.9M 0 0 776k 0 0:00:18 0:00:14 0:00:04 714k 80 14.0M 80 11.3M 0 0 748k 0 0:00:19 0:00:15 0:00:04 603k 83 14.0M 83 11.8M 0 0 732k 0 0:00:19 0:00:16 0:00:03 707k 89 14.0M 89 12.5M 0 0 735k 0 0:00:19 0:00:17 0:00:02 663k 94 14.0M 94 13.2M 0 0 712k 0 0:00:20 0:00:19 0:00:01 577k 96 14.0M 96 13.5M 0 0 710k 0 0:00:20 0:00:19 0:00:01 520k 100 14.0M 100 14.0M 0 0 712k 0 0:00:20 0:00:20 --:--:-- 594k curl --connect-timeout 30 -f -L -A 'fink/0.37.0' -O http://distfiles.master.finkmirrors.net/distfiles/reference-structures.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 7 6571k 7 515k 0 0 484k 0 0:00:13 0:00:01 0:00:12 484k 24 6571k 24 1630k 0 0 791k 0 0:00:08 0:00:02 0:00:06 791k 48 6571k 48 3188k 0 0 1043k 0 0:00:06 0:00:03 0:00:03 1043k 74 6571k 74 4916k 0 0 1212k 0 0:00:05 0:00:04 0:00:01 1212k 96 6571k 96 6360k 0 0 1247k 0 0:00:05 0:00:05 --:--:-- 1273k 98 6571k 98 6477k 0 0 1069k 0 0:00:06 0:00:06 --:--:-- 1194k 100 6571k 100 6571k 0 0 1059k 0 0:00:06 0:00:06 --:--:-- 1192k Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/libs/boost1.53.nopython-shlibs_1.53.0-2_darwin-x86_64.deb Selecting previously deselected package boost1.53.nopython-shlibs. (Reading database ... 4740 files and directories currently installed.) Unpacking boost1.53.nopython-shlibs (from .../boost1.53.nopython-shlibs_1.53.0-2_darwin-x86_64.deb) ... Setting up boost1.53.nopython-shlibs (1.53.0-2) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/ccp4srs-dev_1.0-1_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/ccp4srs-shlibs_1.0-1_darwin-x86_64.deb Selecting previously deselected package ccp4srs-dev. (Reading database ... 4791 files and directories currently installed.) Unpacking ccp4srs-dev (from .../ccp4srs-dev_1.0-1_darwin-x86_64.deb) ... Selecting previously deselected package ccp4srs-shlibs. 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All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/rdkit_2014.03.1-3_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/rdkit-shlibs_2014.03.1-3_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/rdkit-dev_2014.03.1-3_darwin-x86_64.deb Selecting previously deselected package rdkit. (Reading database ... 78988 files and directories currently installed.) Unpacking rdkit (from .../rdkit_2014.03.1-3_darwin-x86_64.deb) ... Selecting previously deselected package rdkit-shlibs. Unpacking rdkit-shlibs (from .../rdkit-shlibs_2014.03.1-3_darwin-x86_64.deb) ... Selecting previously deselected package rdkit-dev. Unpacking rdkit-dev (from .../rdkit-dev_2014.03.1-3_darwin-x86_64.deb) ... Setting up rdkit-shlibs (2014.03.1-3) ... Setting up rdkit-dev (2014.03.1-3) ... Setting up rdkit (2014.03.1-3) ... Setting runtime build-lock... dpkg-deb -b /sw/build.build/root-fink-buildlock-coot-0.8-pre-revision-5067-1 /sw/build.build dpkg-deb: building package `fink-buildlock-coot-0.8-pre-revision-5067-1' in `/sw/build.build/fink-buildlock-coot-0.8-pre-revision-5067-1_2014.08.04-05.45.17_darwin-x86_64.deb'. Installing build-lock package... /sw/bin/dpkg-lockwait -i /sw/build.build/fink-buildlock-coot-0.8-pre-revision-5067-1_2014.08.04-05.45.17_darwin-x86_64.deb Selecting previously deselected package fink-buildlock-coot-0.8-pre-revision-5067-1. (Reading database ... 81573 files and directories currently installed.) Unpacking fink-buildlock-coot-0.8-pre-revision-5067-1 (from .../fink-buildlock-coot-0.8-pre-revision-5067-1_2014.08.04-05.45.17_darwin-x86_64.deb) ... Setting up fink-buildlock-coot-0.8-pre-revision-5067-1 (2014.08.04-05.45.17) ... sudo -u fink-bld [ENV] sh -c /tmp/fink.fHzYb env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/coot-0.8-pre-revision-5067.tar.gz coot-0.8-pre/ coot-0.8-pre/lbg/ coot-0.8-pre/lbg/qed-interface.hh coot-0.8-pre/lbg/lbg.glade coot-0.8-pre/lbg/wmolecule.hh coot-0.8-pre/lbg/graphics-c-interface-functions.hh coot-0.8-pre/lbg/6-c.svg coot-0.8-pre/lbg/graphics-c-interface-functions-blanks.cc coot-0.8-pre/lbg/alerts.cc coot-0.8-pre/lbg/residue-circles.cc coot-0.8-pre/lbg/alerts-list.cc coot-0.8-pre/lbg/qed-interface.cc coot-0.8-pre/lbg/3-c-other.svg coot-0.8-pre/lbg/flev-annotations.cc coot-0.8-pre/lbg/flev-annotations.hh coot-0.8-pre/lbg/TheStructorr_magnifying_glass-32.svg coot-0.8-pre/lbg/alerts.hh coot-0.8-pre/lbg/05_Hotel_Icon_Hair_Salon.svg coot-0.8-pre/lbg/lbg.cc coot-0.8-pre/lbg/Makefile.in coot-0.8-pre/lbg/wmolecule.cc coot-0.8-pre/lbg/6-c-shadow-experiment.svg coot-0.8-pre/lbg/5-c.svg coot-0.8-pre/lbg/charge.svg coot-0.8-pre/lbg/4-c.svg coot-0.8-pre/lbg/lbg-drag-and-drop.hh coot-0.8-pre/lbg/single.svg coot-0.8-pre/lbg/lidia-main.cc coot-0.8-pre/lbg/lbg-callbacks-outer.cc coot-0.8-pre/lbg/sp3.svg coot-0.8-pre/lbg/pi-stacking.hh coot-0.8-pre/lbg/3-c.svg coot-0.8-pre/lbg/TheStructorr_magnifying_glass.svg coot-0.8-pre/lbg/Makefile.am coot-0.8-pre/lbg/face-smile.svg coot-0.8-pre/lbg/stereo-out.svg coot-0.8-pre/lbg/Anonymous_Architetto_--_Chiave.svg coot-0.8-pre/lbg/3-c-new.svg coot-0.8-pre/lbg/lbg-drag-and-drop.cc coot-0.8-pre/lbg/test_lbg_functions.cc coot-0.8-pre/lbg/8-c.svg coot-0.8-pre/lbg/6-c-arom.svg coot-0.8-pre/lbg/lbg-search.cc coot-0.8-pre/lbg/double.svg coot-0.8-pre/lbg/6-c-exp-2.svg coot-0.8-pre/lbg/pi-stacking.cc coot-0.8-pre/lbg/lbg.hh coot-0.8-pre/lbg/7-c.svg coot-0.8-pre/lbg/triple.svg coot-0.8-pre/lbg/Trash-hydrogens-Andy_Trash_Can.svg coot-0.8-pre/lbg/lbg-callbacks.cc coot-0.8-pre/cootaneer/ coot-0.8-pre/cootaneer/buccaneer-lib.h coot-0.8-pre/cootaneer/buccaneer-prot.h coot-0.8-pre/cootaneer/buccaneer-prot.cpp coot-0.8-pre/cootaneer/Makefile.in coot-0.8-pre/cootaneer/buccaneer-sequence.cpp coot-0.8-pre/cootaneer/cootaneer-sequence.cpp coot-0.8-pre/cootaneer/Makefile.am coot-0.8-pre/cootaneer/cootaneer-sequence.h coot-0.8-pre/cootaneer/cootaneer-llk-2.40.dat coot-0.8-pre/cootaneer/cootaneer-demo.cpp coot-0.8-pre/cootaneer/buccaneer-sequence.h coot-0.8-pre/cootaneer/buccaneer-lib.cpp coot-0.8-pre/python-tests/ coot-0.8-pre/python-tests/07_ncs.py coot-0.8-pre/python-tests/03_ligand.py coot-0.8-pre/python-tests/coot_unittest.py coot-0.8-pre/python-tests/01_pdb_mtz.py coot-0.8-pre/python-tests/06_ssm.py coot-0.8-pre/python-tests/Makefile.in coot-0.8-pre/python-tests/08_utils.py coot-0.8-pre/python-tests/05_rna_ghosts.py coot-0.8-pre/python-tests/04_cootaneer.py coot-0.8-pre/python-tests/09_internal.py coot-0.8-pre/python-tests/Makefile.am coot-0.8-pre/python-tests/begin.py coot-0.8-pre/python-tests/02_shelx.py coot-0.8-pre/install-sh coot-0.8-pre/doc/ coot-0.8-pre/doc/crib-sheet.tex coot-0.8-pre/doc/functions.tex coot-0.8-pre/doc/3-amino-benzamide-2.eps coot-0.8-pre/doc/derivatives-part.tex coot-0.8-pre/doc/coot-plain-2.ps coot-0.8-pre/doc/texinfo.tex coot-0.8-pre/doc/coot-user-manual.texi coot-0.8-pre/doc/derivatives.tex coot-0.8-pre/doc/coot.tex coot-0.8-pre/doc/Makefile.in coot-0.8-pre/doc/coot-reference-manual.texi coot-0.8-pre/doc/tutorial.tex coot-0.8-pre/doc/Makefile.am coot-0.8-pre/doc/function-filter.scsh coot-0.8-pre/doc/3-amino-benzamide-2.png coot-0.8-pre/doc/reference.tex coot-0.8-pre/libtool coot-0.8-pre/autogen.sh coot-0.8-pre/rama-data/ coot-0.8-pre/rama-data/rota500-cys.data coot-0.8-pre/rama-data/rota500-met.data coot-0.8-pre/rama-data/rota500-trp.data coot-0.8-pre/rama-data/rota500-thr.data coot-0.8-pre/rama-data/rota500-his.data coot-0.8-pre/rama-data/Makefile.in coot-0.8-pre/rama-data/rota500-phetyr.data coot-0.8-pre/rama-data/rota500-leu.data coot-0.8-pre/rama-data/rota500-glu.data coot-0.8-pre/rama-data/rota500-val.data coot-0.8-pre/rama-data/rota500-arg.data coot-0.8-pre/rama-data/rota500-asp.data coot-0.8-pre/rama-data/rota500-ser.data coot-0.8-pre/rama-data/rota500-lys.data coot-0.8-pre/rama-data/Makefile.am coot-0.8-pre/rama-data/rota500-gln.data coot-0.8-pre/rama-data/rota500-asn.data coot-0.8-pre/rama-data/rota500-pro.data coot-0.8-pre/rama-data/rota500-ile.data coot-0.8-pre/geometry/ coot-0.8-pre/geometry/protein-geometry.hh coot-0.8-pre/geometry/protein-geometry.cc coot-0.8-pre/geometry/energy-lib.cc coot-0.8-pre/geometry/notes coot-0.8-pre/geometry/test-read-components.cc coot-0.8-pre/geometry/dict-utils.cc coot-0.8-pre/geometry/cif-parse.cc coot-0.8-pre/geometry/protein-geometry-mmdb.cc coot-0.8-pre/geometry/lbg-graph.hh coot-0.8-pre/geometry/Makefile.in coot-0.8-pre/geometry/srs-interface.hh coot-0.8-pre/geometry/test-read-components.hh coot-0.8-pre/geometry/Makefile.simple coot-0.8-pre/geometry/Makefile.am coot-0.8-pre/geometry/test-geometry.cc coot-0.8-pre/geometry/chem_mods.cc coot-0.8-pre/geometry/dict-mismatches.hh coot-0.8-pre/geometry/read-sbase.hh coot-0.8-pre/geometry/compare-dictionaries.cc coot-0.8-pre/geometry/lbg-graph.cc coot-0.8-pre/geometry/read-sbase.cc coot-0.8-pre/geometry/dreiding.cc coot-0.8-pre/depcomp coot-0.8-pre/tw/ coot-0.8-pre/tw/tiddly.cc coot-0.8-pre/tw/tw.cc coot-0.8-pre/tw/Makefile.in coot-0.8-pre/tw/cootsound.c coot-0.8-pre/tw/Makefile.am coot-0.8-pre/tw/coot-tw.hh coot-0.8-pre/surface/ coot-0.8-pre/surface/CXXTriangle.h coot-0.8-pre/surface/CXXBall.h coot-0.8-pre/surface/CXXSphereTriangle.cpp coot-0.8-pre/surface/TokenIterator.h coot-0.8-pre/surface/CXXSphereNode.cpp coot-0.8-pre/surface/CXXMatrix4x4.h coot-0.8-pre/surface/CXXCircle.cpp coot-0.8-pre/surface/CXXSpace.h coot-0.8-pre/surface/CXXChargeTable.cpp coot-0.8-pre/surface/CXXSphereTriangle.h coot-0.8-pre/surface/CXXException.h coot-0.8-pre/surface/CXXTorusElement.h coot-0.8-pre/surface/CXXQADSurface.cpp coot-0.8-pre/surface/CXXSurface.h coot-0.8-pre/surface/CXXUtils.h coot-0.8-pre/surface/CXXSphereNode.h coot-0.8-pre/surface/CXXNode.h coot-0.8-pre/surface/CXXAlloc.h coot-0.8-pre/surface/CXXTriangle.cpp coot-0.8-pre/surface/CXXTorusTriangle.cpp coot-0.8-pre/surface/CXXTorusNode.cpp coot-0.8-pre/surface/surface.h coot-0.8-pre/surface/CXXCircleNode.cpp coot-0.8-pre/surface/CXXUtils.cpp coot-0.8-pre/surface/CXXCreator.h coot-0.8-pre/surface/CXXChargeTable.h coot-0.8-pre/surface/CXXTorusNode.h coot-0.8-pre/surface/CXXSphereElement.cpp coot-0.8-pre/surface/Makefile.in coot-0.8-pre/surface/CXXNode.cpp coot-0.8-pre/surface/CXXCircle.h coot-0.8-pre/surface/surface.cpp coot-0.8-pre/surface/CXXNewHood.h coot-0.8-pre/surface/CXXTorusElement.cpp coot-0.8-pre/surface/CXXException.cpp coot-0.8-pre/surface/CXXCircleNode.h coot-0.8-pre/surface/CXXFFTSolventMap.h coot-0.8-pre/surface/CXXSphereTriangleEdge.cpp coot-0.8-pre/surface/CXXSurfaceVertex.cpp coot-0.8-pre/surface/CXXQADSurfaceStaticData.cpp coot-0.8-pre/surface/Makefile.am coot-0.8-pre/surface/CXXFortranFile.h coot-0.8-pre/surface/CXXFFTSolventMap.cpp coot-0.8-pre/surface/CXXTorusTriangle.h.h coot-0.8-pre/surface/CXXTorusTriangle.h coot-0.8-pre/surface/CXXCoord.h coot-0.8-pre/surface/ElectroSurface.cpp coot-0.8-pre/surface/CXXNewHood.cpp coot-0.8-pre/surface/CXXSpace.cpp coot-0.8-pre/surface/CXXPointyBit.h coot-0.8-pre/surface/CXXSurface.cpp coot-0.8-pre/surface/CXXSphereElement.h coot-0.8-pre/surface/CXXQADSurface.h coot-0.8-pre/surface/CXXSphereTriangleEdge.h coot-0.8-pre/surface/CXXCreator.cpp coot-0.8-pre/surface/CXXBall.cpp coot-0.8-pre/surface/CXXCoord.cpp coot-0.8-pre/surface/CXXFortranFile.cpp coot-0.8-pre/surface/CXXSphereFlatTriangle.h coot-0.8-pre/surface/CXXSurfaceVertex.h coot-0.8-pre/standard-residues.pdb coot-0.8-pre/skeleton/ coot-0.8-pre/skeleton/dm-utils.cc coot-0.8-pre/skeleton/Makefile.in coot-0.8-pre/skeleton/graphical_skel.cc coot-0.8-pre/skeleton/Makefile.am coot-0.8-pre/skeleton/dm-utils.h coot-0.8-pre/skeleton/graphical_skel.h coot-0.8-pre/skeleton/BuildCas.h coot-0.8-pre/skeleton/BuildCas.cc coot-0.8-pre/goograph/ coot-0.8-pre/goograph/goograph.hh coot-0.8-pre/goograph/test-goograph.cc coot-0.8-pre/goograph/Makefile.in coot-0.8-pre/goograph/Makefile.am coot-0.8-pre/goograph/goograph.cc coot-0.8-pre/count-loc coot-0.8-pre/acconfig.h coot-0.8-pre/README coot-0.8-pre/angles/ coot-0.8-pre/angles/angle-torsion-autogen.awk coot-0.8-pre/angles/Makefile.in coot-0.8-pre/angles/ncube.h coot-0.8-pre/angles/AngleInfo.h coot-0.8-pre/angles/wrapped-ncube.h coot-0.8-pre/angles/AngleInfo-theta_2-autogen.cc coot-0.8-pre/angles/Makefile.am coot-0.8-pre/angles/AngleInfo-angle-torsions-autogen.cc coot-0.8-pre/angles/AngleInfo.cc coot-0.8-pre/coot.appdata.xml coot-0.8-pre/cootrc.template coot-0.8-pre/ideal/ coot-0.8-pre/ideal/lograma.cpp coot-0.8-pre/ideal/lograma.h coot-0.8-pre/ideal/torsion-bonds.cc coot-0.8-pre/ideal/simple-restraint.hh coot-0.8-pre/ideal/notes coot-0.8-pre/ideal/test-indexing.hh coot-0.8-pre/ideal/extra-restraints.cc coot-0.8-pre/ideal/link-restraints.cc coot-0.8-pre/ideal/logramatest.cpp coot-0.8-pre/ideal/regularize-minimol.cc coot-0.8-pre/ideal/simple-restraint-kk.cc coot-0.8-pre/ideal/mini-rsr.cc coot-0.8-pre/ideal/Makefile.in coot-0.8-pre/ideal/parallel-planes.cc coot-0.8-pre/ideal/parallel-planes.hh coot-0.8-pre/ideal/with-geometry.cc coot-0.8-pre/ideal/Makefile.simple coot-0.8-pre/ideal/pepflip.cc coot-0.8-pre/ideal/Makefile.am coot-0.8-pre/ideal/regularize-minimol.hh coot-0.8-pre/ideal/pepflip.hh coot-0.8-pre/ideal/test-indexing.cc coot-0.8-pre/ideal/extra-restraints-kk.cc coot-0.8-pre/ideal/coot-compare-residues.hh coot-0.8-pre/ideal/coot-compare-residues.cc coot-0.8-pre/ideal/chirals.cc coot-0.8-pre/ideal/molmantest.cc coot-0.8-pre/ideal/simple-restraint.cc coot-0.8-pre/density-contour/ coot-0.8-pre/density-contour/CIsoSurface.cpp coot-0.8-pre/density-contour/density-contour-triangles.hh coot-0.8-pre/density-contour/Makefile.in coot-0.8-pre/density-contour/Vectors.cpp coot-0.8-pre/density-contour/CIsoSurface.h coot-0.8-pre/density-contour/Vectors.h coot-0.8-pre/density-contour/Makefile.am coot-0.8-pre/density-contour/density-contour-triangles.cc coot-0.8-pre/ccp4mg-utils/ coot-0.8-pre/ccp4mg-utils/matrix.h coot-0.8-pre/ccp4mg-utils/mgtree.h coot-0.8-pre/ccp4mg-utils/geomutil.h coot-0.8-pre/ccp4mg-utils/cartesian.cc coot-0.8-pre/ccp4mg-utils/Makefile.in coot-0.8-pre/ccp4mg-utils/quat.cc coot-0.8-pre/ccp4mg-utils/convert.sh coot-0.8-pre/ccp4mg-utils/mgtree.cc coot-0.8-pre/ccp4mg-utils/get-new-utils.sh coot-0.8-pre/ccp4mg-utils/matrix.cc coot-0.8-pre/ccp4mg-utils/cartesian.h coot-0.8-pre/ccp4mg-utils/geomutil.cc coot-0.8-pre/ccp4mg-utils/ppmutil.h coot-0.8-pre/ccp4mg-utils/Makefile.am coot-0.8-pre/ccp4mg-utils/ppmutil.cc coot-0.8-pre/ccp4mg-utils/quat.h 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coot-0.8-pre/coot-utils/coot-fffear.cc coot-0.8-pre/coot-utils/test-shelx-reader.cc coot-0.8-pre/coot-utils/coot-map-heavy.hh coot-0.8-pre/coot-utils/maps-spherical.cc coot-0.8-pre/coot-utils/coot-coord-utils.hh coot-0.8-pre/coot-utils/coot-coord-extras.hh coot-0.8-pre/coot-utils/coot-coord-utils-glyco.cc coot-0.8-pre/coot-utils/lsq-improve.cc coot-0.8-pre/coot-utils/coot-lsq-types.h coot-0.8-pre/coot-utils/residue-and-atom-specs.hh coot-0.8-pre/coot-utils/Makefile.in coot-0.8-pre/coot-utils/xmap-stats.hh coot-0.8-pre/coot-utils/test-glyco-torsions.cc coot-0.8-pre/coot-utils/coot-hole.hh coot-0.8-pre/coot-utils/coot-coord-utils-nucleotides.cc coot-0.8-pre/coot-utils/tree.hh coot-0.8-pre/coot-utils/peak-search-from-list.cc coot-0.8-pre/coot-utils/test-h-bonds.cc coot-0.8-pre/coot-utils/coot-coord-extras.cc coot-0.8-pre/coot-utils/emma.hh coot-0.8-pre/coot-utils/coot-rama.cc coot-0.8-pre/coot-utils/read-sm-cif.cc coot-0.8-pre/coot-utils/coot-shelx.hh coot-0.8-pre/coot-utils/elastic.cc coot-0.8-pre/coot-utils/Makefile.am coot-0.8-pre/coot-utils/coot-coord-utils.cc coot-0.8-pre/coot-utils/test-hole.cc coot-0.8-pre/coot-utils/glyco-torsions.hh coot-0.8-pre/coot-utils/helix-analysis.hh coot-0.8-pre/coot-utils/test-elastic.cc coot-0.8-pre/coot-utils/coot-rama.hh coot-0.8-pre/coot-utils/coot-shelx-ins.cc coot-0.8-pre/coot-utils/coot-map-utils.hh coot-0.8-pre/coot-utils/peak-search.hh coot-0.8-pre/coot-utils/coot-tree-extras.cc coot-0.8-pre/coot-utils/coot-trim.hh coot-0.8-pre/coot-utils/coot-map-utils.cc coot-0.8-pre/coot-utils/bonded-pairs.hh coot-0.8-pre/coot-utils/coot-h-bonds.cc coot-0.8-pre/coot-utils/coot-map-heavy.cc coot-0.8-pre/coot-utils/read-sm-cif.hh coot-0.8-pre/coot-utils/test-spherical.cc coot-0.8-pre/missing coot-0.8-pre/coords/ coot-0.8-pre/coords/utils.cc coot-0.8-pre/coords/Bond_lines_ext.cc coot-0.8-pre/coords/Cartesian.cc coot-0.8-pre/coords/cos-sin.h coot-0.8-pre/coords/Cartesian.h coot-0.8-pre/coords/mmdb-crystal.h coot-0.8-pre/coords/mmdb.cc coot-0.8-pre/coords/cos-sin.cc coot-0.8-pre/coords/coot-close.hh coot-0.8-pre/coords/Makefile.in coot-0.8-pre/coords/Bond_lines_ext.h coot-0.8-pre/coords/mmdb-extras.h coot-0.8-pre/coords/utils.h coot-0.8-pre/coords/mmdb-extras.cc coot-0.8-pre/coords/Makefile.am coot-0.8-pre/coords/Bond_lines.cc coot-0.8-pre/coords/Bond_lines.h coot-0.8-pre/coords/coot-close.cc coot-0.8-pre/coords/mmdb.h coot-0.8-pre/coords/mmdb-crystal.cc coot-0.8-pre/RELEASE-NOTES coot-0.8-pre/greg-tests/ coot-0.8-pre/greg-tests/05-rna-ghosts.scm coot-0.8-pre/greg-tests/09-internal.scm coot-0.8-pre/greg-tests/02-shelx.scm coot-0.8-pre/greg-tests/01-pdb+mtz.scm coot-0.8-pre/greg-tests/Makefile.in coot-0.8-pre/greg-tests/08-utils.scm coot-0.8-pre/greg-tests/03-ligand.scm coot-0.8-pre/greg-tests/begin.grg coot-0.8-pre/greg-tests/04-cootaneer.scm coot-0.8-pre/greg-tests/Makefile.am coot-0.8-pre/greg-tests/07-ncs.scm coot-0.8-pre/greg-tests/06-ssm.scm coot-0.8-pre/ltmain.sh coot-0.8-pre/analysis/ coot-0.8-pre/analysis/test-cablam.cc coot-0.8-pre/analysis/cablam.hh coot-0.8-pre/analysis/kolmogorov.hh coot-0.8-pre/analysis/mogul.cc coot-0.8-pre/analysis/bfkurt.hh coot-0.8-pre/analysis/Makefile.in coot-0.8-pre/analysis/bfkurt.cc coot-0.8-pre/analysis/Makefile.simple coot-0.8-pre/analysis/Makefile.am coot-0.8-pre/analysis/kolmogorov.cc coot-0.8-pre/analysis/bfactan.cc coot-0.8-pre/analysis/cablam.cc coot-0.8-pre/analysis/test-mogul.cc coot-0.8-pre/analysis/mogul-interface.hh sudo -u fink-bld [ENV] sh -c /tmp/fink.AJ6bY env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/reference-structures.tar.gz reference-structures/ reference-structures/1c75.pdb reference-structures/1c7k.pdb reference-structures/1ds1.pdb reference-structures/1dy5.pdb reference-structures/1e29.pdb reference-structures/1e4m.pdb reference-structures/1e9g.pdb reference-structures/1eb6.pdb reference-structures/1ejg.pdb reference-structures/1es9.pdb reference-structures/1et1.pdb reference-structures/1euw.pdb reference-structures/1f4p.pdb reference-structures/1f86.pdb reference-structures/1f94.pdb reference-structures/1f9v.pdb reference-structures/1fn8.pdb reference-structures/1fsg.pdb reference-structures/1fye.pdb reference-structures/1g2b.pdb reference-structures/1g2y.pdb reference-structures/1g4i.pdb reference-structures/1g61.pdb reference-structures/1g66.pdb reference-structures/1g6x.pdb reference-structures/1g7a.pdb reference-structures/1ga6.pdb reference-structures/1gk9.pdb reference-structures/1gmx.pdb reference-structures/1h4x.pdb reference-structures/1h97.pdb reference-structures/1hbn.pdb reference-structures/1hdh.pdb reference-structures/1hdo.pdb reference-structures/1heu.pdb reference-structures/1hg7.pdb reference-structures/1jbe.pdb reference-structures/1hvb.pdb reference-structures/1hyo.pdb reference-structures/1i0d.pdb reference-structures/1i0v.pdb reference-structures/1i12.pdb reference-structures/1i27.pdb reference-structures/1i2t.pdb reference-structures/1i40.pdb reference-structures/1i4u.pdb reference-structures/1i8o.pdb reference-structures/1iqz.pdb reference-structures/1ird.pdb reference-structures/1j98.pdb reference-structures/1j9b.pdb reference-structures/1jcl.pdb reference-structures/1jf8.pdb reference-structures/1jfb.pdb reference-structures/1jg1.pdb reference-structures/1jk3.pdb reference-structures/1jl1.pdb reference-structures/1k7c.pdb reference-structures/1ka1.pdb reference-structures/1koi.pdb reference-structures/1kth.pdb sudo -u fink-bld [ENV] sh -c /tmp/fink.hd15G perl -pi -e 's|CXX\=\"libtool --mode\=link \$CXX\"|#CXX|g' configure perl -pi -e 's|define coot-png-display-program \"display\"|define coot-png-display-program \"open\"|g' scheme/raster3d.scm sudo -u fink-bld [ENV] sh -c /tmp/fink._gO27 /tmp/fink.2BG12 #!/bin/bash -efv alias python=/sw/bin/python2.7 export PYTHON=/sw/bin/python2.7 export python=/sw/bin/python2.7 export GUILE=/sw/bin/guile-1.8 if [[ $(sw_vers -productVersion) < 10.6 ]]; then export PATH=/sw/share/guile/1.8/scripts/binoverride:/sw/bin:$PWD/bin:$PATH else export PATH=/sw/var/lib/fink/path-prefix-10.6:/sw/share/guile/1.8/scripts/binoverride:/sw/bin:$PWD/bin:$PATH fi sw_vers -productVersion export SED=/usr/bin/sed export GDK_USE_XFT='1' export COOT_REFMAC_LIB_DIR=/sw/share/coot/lib export PKG_CONFIG_PATH=/sw/lib/glib-2.0/pkgconfig-strict:/sw/lib/fontconfig2/lib/pkgconfig:${PKG_CONFIG_PATH} rdkit_libs='-lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python ' \ rdkit_prefix=/sw \ FLIBS="-L/sw/lib -L/sw/lib/rdkit" \ CPPFLAGS="-I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include" \ LDFLAGS="-Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries" \ DYLD_LIBRARY_PATH="" \ RDKIT_CXXFLAGS=-I$rdkit_prefix/include/rdkit \ RDKIT_LIBS="\"-L/sw/lib/rdkit $rdkit_libs\"" \ PYTHON=/sw/bin/python2.7 ./configure --prefix=/sw --with-clipper-prefix=/sw \ --with-enhanced-ligand-tools \ --with-glut-prefix=/sw \ --with-goocanvas-prefix=/sw \ --with-gsl-exec-prefix=/sw \ --with-gsl-prefix=/sw \ --with-guile-gtk \ --with-guile-gtk-prefix=/sw \ --with-guile \ --with-pygtk=/sw \ --with-python=/sw \ --with-ssmlib-prefix=/sw checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... ./install-sh -c -d checking for gawk... no checking for mawk... no checking for nawk... no checking for awk... awk checking whether make sets $(MAKE)... yes checking for style of include used by make... GNU checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking dependency style of gcc... gcc3 checking for library containing strerror... none required checking for gcc... (cached) gcc checking whether we are using the GNU C compiler... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to accept ISO C89... (cached) none needed checking dependency style of gcc... (cached) gcc3 checking for gcc... (cached) gcc checking whether we are using the GNU C compiler... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to accept ISO C89... (cached) none needed checking dependency style of gcc... (cached) gcc3 checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... gcc3 checking which libtool initialization strategy to adopt... LT-INIT checking build system type... i386-apple-darwin13.3.0 checking host system type... i386-apple-darwin13.3.0 checking for a sed that does not truncate output... /usr/bin/sed checking for fgrep... /usr/bin/grep -F checking for ld used by gcc... /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ld checking if the linker (/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ld) is GNU ld... no checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm checking the name lister (/usr/bin/nm) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 196608 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... yes checking for /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ld option to reload object files... -r checking for objdump... no checking how to recognize dependent libraries... pass_all checking for ar... ar checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm output from gcc object... ok checking for dsymutil... dsymutil checking for nmedit... nmedit checking for lipo... lipo checking for otool... otool checking for otool64... no checking for -single_module linker flag... yes checking for -exported_symbols_list linker flag... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking whether we are using the GNU C++ compiler... (cached) yes checking whether g++ accepts -g... (cached) yes checking dependency style of g++... (cached) gcc3 checking how to run the C++ preprocessor... g++ -E checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... yes checking for gcc option to produce PIC... -fno-common -DPIC checking if gcc PIC flag -fno-common -DPIC works... yes checking if gcc static flag -static works... no checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... darwin13.3.0 dyld checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for ld used by g++... /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ld checking if the linker (/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ld) is GNU ld... no checking whether the g++ linker (/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fno-common -DPIC checking if g++ PIC flag -fno-common -DPIC works... yes checking if g++ static flag -static works... no checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... darwin13.3.0 dyld checking how to hardcode library paths into programs... immediate checking sys/stdtypes.h usability... no checking sys/stdtypes.h presence... no checking for sys/stdtypes.h... no checking for gcc option to support OpenMP... unsupported checking for pkg-config... /sw/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for GLIB... yes checking if this is MINGW on Windows... no checking for MMDB... yes checking for ssm library... /sw checking for CCP4SRS... no checking for Clipper... yes Congratulations, you are using Guile checking for guile... /sw/bin/guile-1.8 checking for guile-config... /sw/share/guile/1.8/scripts/binoverride/guile-config checking for guile-tools... /sw/share/guile/1.8/scripts/binoverride/guile-tools checking libguile compile flags... -I/sw/include -I/sw/include -D_THREAD_SAFE checking libguile link flags... -I/sw/include -D_THREAD_SAFE -L/sw/lib -lguile -lltdl -L/sw/lib -lgmp -lm -lltdl checking for Guile-Lib... yes checking for guile-gui... yes checking GUILE_VERSION: 1.8 checking for gsl-config... /sw/bin/gsl-config checking for GSL - version >= 1.3... yes checking for GTK... yes checking for GNOME_CANVAS... yes checking for pkg-config... /sw/bin/pkg-config checking for GtkGLExt - version >= 1.0.0... yes (version 1.2.0) checking for glLineWidth in -lGL... yes checking for GLUT... yes checking for Python... checking Python.h usability... yes checking Python.h presence... yes checking for Python.h... yes Cool, using Python checking for PYGTK... yes Good we have pygtk checking for guile-gtk... /sw checking libglade... yes checking for Goocanvas... yes Not using database checking for curl >= 7.9.7... 7.37.1 checking build type... Darwin-MacOSX-10.9.4-x86_64-python-gtk2 configure: creating ./config.status config.status: creating Makefile config.status: creating macros/Makefile config.status: creating pdb-templates/Makefile config.status: creating scheme/Makefile config.status: creating python/Makefile config.status: creating compat/Makefile config.status: creating utils/Makefile config.status: creating coot-utils/Makefile config.status: creating protein_db/Makefile config.status: creating ccp4mg-utils/Makefile config.status: creating coords/Makefile config.status: creating db-main/Makefile config.status: creating density-contour/Makefile config.status: creating surface/Makefile config.status: creating coot-surface/Makefile config.status: creating angles/Makefile config.status: creating mini-mol/Makefile config.status: creating skeleton/Makefile config.status: creating ligand/Makefile config.status: creating geometry/Makefile config.status: creating ideal/Makefile config.status: creating build/Makefile config.status: creating analysis/Makefile config.status: creating high-res/Makefile config.status: creating tw/Makefile config.status: creating cootaneer/Makefile config.status: creating cootilus/Makefile config.status: creating greg-tests/Makefile config.status: creating python-tests/Makefile config.status: creating lidia-core/Makefile config.status: creating libgtkgraph/Makefile config.status: creating goograph/Makefile config.status: creating lbg/Makefile config.status: creating doc/Makefile config.status: creating src/Makefile config.status: creating src/coot config.status: creating python/coot_load_modules.py config.status: creating data/Makefile config.status: creating pixmaps/Makefile config.status: creating rama-data/Makefile config.status: creating auxil/Makefile config.status: creating auxil/catcheck/Makefile config.status: creating auxil/rama/Makefile config.status: creating auxil/sec-str/Makefile config.status: creating auxil/strand-analysis/Makefile config.status: creating auxil/vectors/Makefile config.status: creating rcrane/Makefile config.status: executing depfiles commands config.status: executing libtool commands # # Force coot to link to single-precision fftw libraries. The double-precision libraries # cause coot to crash. find . -name "Makefile" -exec perl -pi -e 's|lrfftw |lsrfftw |g' '{}' \; find . -name "Makefile" -exec perl -pi -e 's|lfftw |lsfftw |g' '{}' \; perl -pi -e 's|include |include |g' surface/CXXFFTSolventMap.h # if [[ $(sw_vers -productVersion) < 10.5 ]]; then # Fix libtool compatibility issues sed -e '/verstring=/s/\${wl}//g' < libtool > libtool.fixed mv libtool.fixed libtool fi sw_vers -productVersion # NUMPROC="$(sysctl -n hw.ncpu)" sysctl -n hw.ncpu # NUMPROC="1" PYTHON=/sw/bin/python2.7 make -j $NUMPROC Making all in auxil Making all in catcheck make[2]: Nothing to be done for `all'. Making all in rama make[2]: Nothing to be done for `all'. Making all in sec-str make[2]: Nothing to be done for `all'. Making all in strand-analysis make[2]: Nothing to be done for `all'. Making all in vectors make[2]: Nothing to be done for `all'. make[2]: Nothing to be done for `all-am'. Making all in scheme make[1]: Nothing to be done for `all'. Making all in python make[1]: Nothing to be done for `all'. Making all in pdb-templates make[1]: Nothing to be done for `all'. Making all in macros make[1]: Nothing to be done for `all'. Making all in compat /bin/sh ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c -o getopt.lo getopt.c /bin/sh ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c -o getopt1.lo getopt1.c libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.c -fno-common -DPIC -o .libs/getopt.o libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c getopt1.c -fno-common -DPIC -o .libs/getopt1.o libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c getopt1.c -o getopt1.o >/dev/null 2>&1 mv -f .deps/getopt1.Tpo .deps/getopt1.Plo libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.c -o getopt.o >/dev/null 2>&1 mv -f .deps/getopt.Tpo .deps/getopt.Plo /bin/sh ../libtool --tag=CC --mode=link gcc -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-compat.la -rpath /sw/lib getopt.lo getopt1.lo libtool: link: gcc -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-compat.0.dylib .libs/getopt.o .libs/getopt1.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcoot-compat.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-compat.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-compat.dylib" && ln -s "libcoot-compat.0.dylib" "libcoot-compat.dylib") libtool: link: ar cru .libs/libcoot-compat.a getopt.o getopt1.o libtool: link: ranlib .libs/libcoot-compat.a libtool: link: ( cd ".libs" && rm -f "libcoot-compat.la" && ln -s "../libcoot-compat.la" "libcoot-compat.la" ) Making all in utils /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c -o coot-utils.lo coot-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT coot-fasta.lo -MD -MP -MF .deps/coot-fasta.Tpo -c -o coot-fasta.lo coot-fasta.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT atomic-numbers.lo -MD -MP -MF .deps/atomic-numbers.Tpo -c -o atomic-numbers.lo atomic-numbers.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT gdk-keysyms.lo -MD -MP -MF .deps/gdk-keysyms.Tpo -c -o gdk-keysyms.lo gdk-keysyms.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT hsv-rgb.lo -MD -MP -MF .deps/hsv-rgb.Tpo -c -o hsv-rgb.lo hsv-rgb.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c coot-utils.cc -fno-common -DPIC -o .libs/coot-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT atomic-numbers.lo -MD -MP -MF .deps/atomic-numbers.Tpo -c atomic-numbers.cc -fno-common -DPIC -o .libs/atomic-numbers.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT coot-fasta.lo -MD -MP -MF .deps/coot-fasta.Tpo -c coot-fasta.cc -fno-common -DPIC -o .libs/coot-fasta.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT gdk-keysyms.lo -MD -MP -MF .deps/gdk-keysyms.Tpo -c gdk-keysyms.cc -fno-common -DPIC -o .libs/gdk-keysyms.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT hsv-rgb.lo -MD -MP -MF .deps/hsv-rgb.Tpo -c hsv-rgb.cc -fno-common -DPIC -o .libs/hsv-rgb.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT hsv-rgb.lo -MD -MP -MF .deps/hsv-rgb.Tpo -c hsv-rgb.cc -o hsv-rgb.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT coot-fasta.lo -MD -MP -MF .deps/coot-fasta.Tpo -c coot-fasta.cc -o coot-fasta.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT atomic-numbers.lo -MD -MP -MF .deps/atomic-numbers.Tpo -c atomic-numbers.cc -o atomic-numbers.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT gdk-keysyms.lo -MD -MP -MF .deps/gdk-keysyms.Tpo -c gdk-keysyms.cc -o gdk-keysyms.o >/dev/null 2>&1 mv -f .deps/atomic-numbers.Tpo .deps/atomic-numbers.Plo mv -f .deps/hsv-rgb.Tpo .deps/hsv-rgb.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c coot-utils.cc -o coot-utils.o >/dev/null 2>&1 mv -f .deps/coot-fasta.Tpo .deps/coot-fasta.Plo mv -f .deps/gdk-keysyms.Tpo .deps/gdk-keysyms.Plo mv -f .deps/coot-utils.Tpo .deps/coot-utils.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-utils.la -rpath /sw/lib coot-utils.lo coot-fasta.lo atomic-numbers.lo gdk-keysyms.lo hsv-rgb.lo libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-utils.0.dylib .libs/coot-utils.o .libs/coot-fasta.o .libs/atomic-numbers.o .libs/gdk-keysyms.o .libs/hsv-rgb.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcoot-utils.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-utils.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-utils.dylib" && ln -s "libcoot-utils.0.dylib" "libcoot-utils.dylib") libtool: link: ar cru .libs/libcoot-utils.a coot-utils.o coot-fasta.o atomic-numbers.o gdk-keysyms.o hsv-rgb.o libtool: link: ranlib .libs/libcoot-utils.a libtool: link: ( cd ".libs" && rm -f "libcoot-utils.la" && ln -s "../libcoot-utils.la" "libcoot-utils.la" ) Making all in protein_db /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c -o protein_db.lo protein_db.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c -o protein_db_utils.lo protein_db_utils.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c -o rna_db.lo rna_db.cpp libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c protein_db_utils.cpp -fno-common -DPIC -o .libs/protein_db_utils.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c rna_db.cpp -fno-common -DPIC -o .libs/rna_db.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c protein_db.cpp -fno-common -DPIC -o .libs/protein_db.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c rna_db.cpp -o rna_db.o >/dev/null 2>&1 mv -f .deps/rna_db.Tpo .deps/rna_db.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c protein_db_utils.cpp -o protein_db_utils.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c protein_db.cpp -o protein_db.o >/dev/null 2>&1 mv -f .deps/protein_db_utils.Tpo .deps/protein_db_utils.Plo mv -f .deps/protein_db.Tpo .deps/protein_db.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-protein-db.la -rpath /sw/lib protein_db.lo protein_db_utils.lo rna_db.lo -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-protein-db.0.dylib .libs/protein_db.o .libs/protein_db_utils.o .libs/rna_db.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcoot-protein-db.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-protein-db.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.dylib" && ln -s "libcoot-protein-db.0.dylib" "libcoot-protein-db.dylib") libtool: link: ar cru .libs/libcoot-protein-db.a protein_db.o protein_db_utils.o rna_db.o /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libcoot-protein-db.a(rna_db.o) has no symbols libtool: link: ranlib .libs/libcoot-protein-db.a /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libcoot-protein-db.a(rna_db.o) has no symbols libtool: link: ( cd ".libs" && rm -f "libcoot-protein-db.la" && ln -s "../libcoot-protein-db.la" "libcoot-protein-db.la" ) Making all in mini-mol /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c -o mini-mol.lo mini-mol.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c -o mini-mol-utils.lo mini-mol-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c -o atom-quads.lo atom-quads.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT testminimol.o -MD -MP -MF .deps/testminimol.Tpo -c -o testminimol.o testminimol.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c mini-mol-utils.cc -fno-common -DPIC -o .libs/mini-mol-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c atom-quads.cc -fno-common -DPIC -o .libs/atom-quads.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c mini-mol.cc -fno-common -DPIC -o .libs/mini-mol.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c atom-quads.cc -o atom-quads.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c mini-mol-utils.cc -o mini-mol-utils.o >/dev/null 2>&1 mv -f .deps/testminimol.Tpo .deps/testminimol.Po mv -f .deps/atom-quads.Tpo .deps/atom-quads.Plo mv -f .deps/mini-mol-utils.Tpo .deps/mini-mol-utils.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c mini-mol.cc -o mini-mol.o >/dev/null 2>&1 mv -f .deps/mini-mol.Tpo .deps/mini-mol.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-mini-mol.la -rpath /sw/lib mini-mol.lo mini-mol-utils.lo atom-quads.lo -lmmdb -lm -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-mini-mol.0.dylib .libs/mini-mol.o .libs/mini-mol-utils.o .libs/atom-quads.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libmmdb.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lm -lpthread -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcoot-mini-mol.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-mini-mol.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.dylib" && ln -s "libcoot-mini-mol.0.dylib" "libcoot-mini-mol.dylib") libtool: link: ar cru .libs/libcoot-mini-mol.a mini-mol.o mini-mol-utils.o atom-quads.o libtool: link: ranlib .libs/libcoot-mini-mol.a libtool: link: ( cd ".libs" && rm -f "libcoot-mini-mol.la" && ln -s "../libcoot-mini-mol.la" "libcoot-mini-mol.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o testminimol testminimol.o libcoot-mini-mol.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/testminimol testminimol.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-mini-mol.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm Making all in geometry /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c -o protein-geometry.lo protein-geometry.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT protein-geometry-mmdb.lo -MD -MP -MF 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-DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c -o energy-lib.lo energy-lib.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include 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-I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT dreiding.lo -MD -MP -MF .deps/dreiding.Tpo -c -o dreiding.lo dreiding.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT dict-utils.lo -MD -MP -MF .deps/dict-utils.Tpo -c -o dict-utils.lo dict-utils.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c energy-lib.cc -fno-common -DPIC -o .libs/energy-lib.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c protein-geometry.cc -fno-common -DPIC -o .libs/protein-geometry.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c read-sbase.cc -fno-common -DPIC -o .libs/read-sbase.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT dreiding.lo -MD -MP -MF .deps/dreiding.Tpo -c dreiding.cc -fno-common -DPIC -o .libs/dreiding.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c protein-geometry-mmdb.cc -fno-common -DPIC -o .libs/protein-geometry-mmdb.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT dict-utils.lo -MD -MP -MF .deps/dict-utils.Tpo -c dict-utils.cc -fno-common -DPIC -o .libs/dict-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT lbg-graph.lo -MD -MP -MF .deps/lbg-graph.Tpo -c lbg-graph.cc -fno-common -DPIC -o .libs/lbg-graph.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT chem_mods.lo -MD -MP -MF .deps/chem_mods.Tpo -c chem_mods.cc -fno-common -DPIC -o .libs/chem_mods.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT lbg-graph.lo -MD -MP -MF .deps/lbg-graph.Tpo -c lbg-graph.cc -o lbg-graph.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c read-sbase.cc -o read-sbase.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c protein-geometry-mmdb.cc -o protein-geometry-mmdb.o >/dev/null 2>&1 dict-utils.cc:772:11: warning: equality comparison result unused [-Wunused-comparison] found == true; ~~~~~~^~~~~~~ dict-utils.cc:772:11: note: use '=' to turn this equality comparison into an assignment found == true; ^~ = libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT dreiding.lo -MD -MP -MF .deps/dreiding.Tpo -c dreiding.cc -o dreiding.o >/dev/null 2>&1 mv -f .deps/lbg-graph.Tpo .deps/lbg-graph.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT cif-parse.lo -MD -MP -MF .deps/cif-parse.Tpo -c -o cif-parse.lo cif-parse.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c energy-lib.cc -o energy-lib.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT cif-parse.lo -MD -MP -MF .deps/cif-parse.Tpo -c cif-parse.cc -fno-common -DPIC -o .libs/cif-parse.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT chem_mods.lo -MD -MP -MF .deps/chem_mods.Tpo -c chem_mods.cc -o chem_mods.o >/dev/null 2>&1 mv -f .deps/protein-geometry-mmdb.Tpo .deps/protein-geometry-mmdb.Plo mv -f .deps/dreiding.Tpo .deps/dreiding.Plo mv -f .deps/read-sbase.Tpo .deps/read-sbase.Plo g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT compare-dictionaries.o -MD -MP -MF .deps/compare-dictionaries.Tpo -c -o compare-dictionaries.o compare-dictionaries.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT test-geometry.o -MD -MP -MF .deps/test-geometry.Tpo -c -o test-geometry.o test-geometry.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT test-read-components.o -MD -MP -MF .deps/test-read-components.Tpo -c -o test-read-components.o test-read-components.cc cif-parse.cc:1386:24: warning: use of unary operator that may be intended as compound assignment (+=) ierr_tot_for_ccd =+ ierr; ^~ cif-parse.cc:1399:24: warning: use of unary operator that may be intended as compound assignment (+=) ierr_tot_for_ccd =+ ierr; ^~ cif-parse.cc:1405:24: warning: use of unary operator that may be intended as compound assignment (+=) ierr_tot_for_ccd =+ ierr; ^~ cif-parse.cc:1437:24: warning: use of unary operator that may be intended as compound assignment (+=) ierr_tot_for_ccd =+ ierr; ^~ 1 warning generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT dict-utils.lo -MD -MP -MF .deps/dict-utils.Tpo -c dict-utils.cc -o dict-utils.o >/dev/null 2>&1 mv -f .deps/energy-lib.Tpo .deps/energy-lib.Plo mv -f .deps/test-read-components.Tpo .deps/test-read-components.Po libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c protein-geometry.cc -o protein-geometry.o >/dev/null 2>&1 mv -f .deps/compare-dictionaries.Tpo .deps/compare-dictionaries.Po mv -f .deps/test-geometry.Tpo .deps/test-geometry.Po mv -f .deps/chem_mods.Tpo .deps/chem_mods.Plo mv -f .deps/dict-utils.Tpo .deps/dict-utils.Plo 4 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT cif-parse.lo -MD -MP -MF .deps/cif-parse.Tpo -c cif-parse.cc -o cif-parse.o >/dev/null 2>&1 mv -f .deps/protein-geometry.Tpo .deps/protein-geometry.Plo mv -f .deps/cif-parse.Tpo .deps/cif-parse.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-geometry.la -rpath /sw/lib protein-geometry.lo protein-geometry-mmdb.lo read-sbase.lo energy-lib.lo chem_mods.lo lbg-graph.lo dreiding.lo dict-utils.lo cif-parse.lo ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-geometry.0.dylib .libs/protein-geometry.o .libs/protein-geometry-mmdb.o .libs/read-sbase.o .libs/energy-lib.o .libs/chem_mods.o .libs/lbg-graph.o .libs/dreiding.o .libs/dict-utils.o .libs/cif-parse.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../mini-mol/.libs/libcoot-mini-mol.dylib ../utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcoot-geometry.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-geometry.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-geometry.dylib" && ln -s "libcoot-geometry.0.dylib" "libcoot-geometry.dylib") libtool: link: ar cru .libs/libcoot-geometry.a protein-geometry.o protein-geometry-mmdb.o read-sbase.o energy-lib.o chem_mods.o lbg-graph.o dreiding.o dict-utils.o cif-parse.o libtool: link: ranlib .libs/libcoot-geometry.a libtool: link: ( cd ".libs" && rm -f "libcoot-geometry.la" && ln -s "../libcoot-geometry.la" "libcoot-geometry.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o compare-dictionaries compare-dictionaries.o ./libcoot-geometry.la ../utils/libcoot-utils.la /bin/sh ../libtool --tag=CXX --mode=link g++ -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o test-geometry test-geometry.o ./libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm /bin/sh ../libtool --tag=CXX --mode=link g++ -DDATADIR='"/sw/share"' -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o test-read-components test-read-components.o ./libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/compare-dictionaries compare-dictionaries.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm ../utils/.libs/libcoot-utils.dylib libtool: link: g++ -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/test-geometry test-geometry.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm libtool: link: g++ -DDATADIR=\"/sw/share\" -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/test-read-components test-read-components.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm Making all in coot-utils /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT coot-coord-utils.lo -MD -MP -MF .deps/coot-coord-utils.Tpo -c -o coot-coord-utils.lo coot-coord-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT coot-coord-utils-nucleotides.lo -MD -MP -MF .deps/coot-coord-utils-nucleotides.Tpo -c -o coot-coord-utils-nucleotides.lo coot-coord-utils-nucleotides.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT coot-rama.lo -MD -MP -MF .deps/coot-rama.Tpo -c -o coot-rama.lo coot-rama.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT coot-h-bonds.lo -MD -MP -MF .deps/coot-h-bonds.Tpo -c -o coot-h-bonds.lo coot-h-bonds.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT hole.lo -MD -MP -MF .deps/hole.Tpo -c -o hole.lo hole.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT read-sm-cif.lo -MD -MP -MF .deps/read-sm-cif.Tpo -c -o read-sm-cif.lo read-sm-cif.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT bonded-pairs.lo -MD -MP -MF .deps/bonded-pairs.Tpo -c -o bonded-pairs.lo bonded-pairs.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT helix-analysis.lo -MD -MP -MF .deps/helix-analysis.Tpo -c -o helix-analysis.lo helix-analysis.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT coot-coord-utils.lo -MD -MP -MF .deps/coot-coord-utils.Tpo -c coot-coord-utils.cc -fno-common -DPIC -o .libs/coot-coord-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT coot-coord-utils-nucleotides.lo -MD -MP -MF .deps/coot-coord-utils-nucleotides.Tpo -c coot-coord-utils-nucleotides.cc -fno-common -DPIC -o .libs/coot-coord-utils-nucleotides.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" 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.libs/coot-rama.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT read-sm-cif.lo -MD -MP -MF .deps/read-sm-cif.Tpo -c 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-MD -MP -MF .deps/bonded-pairs.Tpo -c bonded-pairs.cc -fno-common -DPIC -o .libs/bonded-pairs.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL 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-DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT helix-analysis.lo -MD -MP -MF .deps/helix-analysis.Tpo -c helix-analysis.cc -fno-common -DPIC -o .libs/helix-analysis.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT helix-analysis.lo -MD -MP -MF .deps/helix-analysis.Tpo -c helix-analysis.cc -o helix-analysis.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT bonded-pairs.lo -MD -MP -MF .deps/bonded-pairs.Tpo -c bonded-pairs.cc -o bonded-pairs.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT coot-rama.lo -MD -MP -MF .deps/coot-rama.Tpo -c coot-rama.cc -o coot-rama.o >/dev/null 2>&1 hole.cc:321:31: warning: comparison of unsigned expression < 0 is always false [-Wtautological-compare] if (max_upstream_check_limit<0) ~~~~~~~~~~~~~~~~~~~~~~~~^~ libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON 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-DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT maps-spherical.lo -MD -MP -MF .deps/maps-spherical.Tpo -c maps-spherical.cc -o maps-spherical.o >/dev/null 2>&1 mv -f .deps/test-shelx-reader.Tpo .deps/test-shelx-reader.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT test-hole.o -MD -MP -MF .deps/test-hole.Tpo -c -o test-hole.o test-hole.cc mv -f .deps/coot-coord-utils-glyco.Tpo .deps/coot-coord-utils-glyco.Plo g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT test-elastic.o -MD -MP -MF .deps/test-elastic.Tpo -c -o test-elastic.o test-elastic.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT coot-map-utils.lo -MD -MP -MF .deps/coot-map-utils.Tpo -c coot-map-utils.cc -o coot-map-utils.o >/dev/null 2>&1 mv -f .deps/test-h-bonds.Tpo .deps/test-h-bonds.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT test-spherical.o -MD -MP -MF .deps/test-spherical.Tpo -c -o test-spherical.o test-spherical.cc mv -f .deps/test-elastic.Tpo .deps/test-elastic.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT test-glyco-torsions.o -MD -MP -MF .deps/test-glyco-torsions.Tpo -c -o test-glyco-torsions.o test-glyco-torsions.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -DUSE_GUILE -DUSE_PYTHON -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT coot-fffear.lo -MD -MP -MF .deps/coot-fffear.Tpo -c coot-fffear.cc -o coot-fffear.o >/dev/null 2>&1 mv -f .deps/test-spherical.Tpo .deps/test-spherical.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-coord-utils.la -rpath /sw/lib coot-coord-utils.lo coot-coord-utils-nucleotides.lo coot-rama.lo coot-h-bonds.lo hole.lo read-sm-cif.lo bonded-pairs.lo helix-analysis.lo elastic.lo glyco-torsions.lo ../geometry/libcoot-geometry.la mv -f .deps/coot-map-heavy.Tpo .deps/coot-map-heavy.Plo mv -f .deps/test-hole.Tpo .deps/test-hole.Po mv -f .deps/test-glyco-torsions.Tpo .deps/test-glyco-torsions.Po mv -f .deps/test-utils.Tpo .deps/test-utils.Po libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-coord-utils.0.dylib .libs/coot-coord-utils.o .libs/coot-coord-utils-nucleotides.o .libs/coot-rama.o .libs/coot-h-bonds.o .libs/hole.o .libs/read-sm-cif.o .libs/bonded-pairs.o .libs/helix-analysis.o .libs/elastic.o .libs/glyco-torsions.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-coord-utils.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module mv -f .deps/maps-spherical.Tpo .deps/maps-spherical.Plo libtool: link: dsymutil .libs/libcoot-coord-utils.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-coord-utils.dylib" && ln -s "libcoot-coord-utils.0.dylib" "libcoot-coord-utils.dylib") mv -f .deps/coot-fffear.Tpo .deps/coot-fffear.Plo libtool: link: ar cru .libs/libcoot-coord-utils.a coot-coord-utils.o coot-coord-utils-nucleotides.o coot-rama.o coot-h-bonds.o hole.o read-sm-cif.o bonded-pairs.o helix-analysis.o elastic.o glyco-torsions.o libtool: link: ranlib .libs/libcoot-coord-utils.a mv -f .deps/coot-map-utils.Tpo .deps/coot-map-utils.Plo libtool: link: ( cd ".libs" && rm -f "libcoot-coord-utils.la" && ln -s "../libcoot-coord-utils.la" "libcoot-coord-utils.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-shelx.la -rpath /sw/lib coot-shelx-ins.lo libcoot-coord-utils.la ../utils/libcoot-utils.la /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-coord-extras.la -rpath /sw/lib coot-coord-extras.lo coot-coord-lsq.lo coot-tree-extras.lo water-coordination.lo lsq-improve.lo coot-coord-utils-glyco.lo libcoot-coord-utils.la /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-map-utils.la -rpath /sw/lib coot-map-utils.lo peak-search.lo peak-search-from-list.lo trim.lo xmap-stats.lo maps-spherical.lo libcoot-coord-utils.la /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o test-h-bonds test-h-bonds.o ./libcoot-coord-utils.la /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o test-hole test-hole.o ./libcoot-coord-utils.la /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o test-elastic test-elastic.o ./libcoot-coord-utils.la /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o test-spherical test-spherical.o ./libcoot-coord-utils.la -L/sw/lib -lgsl -lgslcblas /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o glyco-torsions test-glyco-torsions.o ./libcoot-coord-utils.la libtool: link: g++ -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/test-h-bonds test-h-bonds.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm libtool: link: g++ -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/test-elastic test-elastic.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm libtool: link: g++ -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/test-hole test-hole.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm libtool: link: g++ -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/glyco-torsions test-glyco-torsions.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-coord-extras.0.dylib .libs/coot-coord-extras.o .libs/coot-coord-lsq.o .libs/coot-tree-extras.o .libs/water-coordination.o .libs/lsq-improve.o .libs/coot-coord-utils-glyco.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-coord-extras.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-map-utils.0.dylib .libs/coot-map-utils.o .libs/peak-search.o .libs/peak-search-from-list.o .libs/trim.o .libs/xmap-stats.o .libs/maps-spherical.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-map-utils.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: g++ -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/test-spherical test-spherical.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-shelx.0.dylib .libs/coot-shelx-ins.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib 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"libcoot-map-utils.dylib") libtool: link: ar cru .libs/libcoot-map-utils.a coot-map-utils.o peak-search.o peak-search-from-list.o trim.o xmap-stats.o maps-spherical.o libtool: link: ranlib .libs/libcoot-shelx.a libtool: link: (cd ".libs" && rm -f "libcoot-coord-extras.dylib" && ln -s "libcoot-coord-extras.0.dylib" "libcoot-coord-extras.dylib") libtool: link: ar cru .libs/libcoot-coord-extras.a coot-coord-extras.o coot-coord-lsq.o coot-tree-extras.o water-coordination.o lsq-improve.o coot-coord-utils-glyco.o libtool: link: ( cd ".libs" && rm -f "libcoot-shelx.la" && ln -s "../libcoot-shelx.la" "libcoot-shelx.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o testshelxreader test-shelx-reader.o ./libcoot-shelx.la ./libcoot-coord-utils.la libtool: link: ranlib .libs/libcoot-map-utils.a libtool: link: g++ -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/testshelxreader test-shelx-reader.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm libtool: link: ranlib .libs/libcoot-coord-extras.a libtool: link: ( cd ".libs" && rm -f "libcoot-map-utils.la" && ln -s "../libcoot-map-utils.la" "libcoot-map-utils.la" ) libtool: link: ( cd ".libs" && rm -f "libcoot-coord-extras.la" && ln -s "../libcoot-coord-extras.la" "libcoot-coord-extras.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-map-heavy.la -rpath /sw/lib coot-map-heavy.lo coot-fffear.lo libcoot-map-utils.la libcoot-coord-utils.la -L/sw/lib -lgsl -lgslcblas /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o testcootutils test-utils.o ./libcoot-shelx.la ./libcoot-coord-extras.la ./libcoot-coord-utils.la libtool: link: g++ -DHAVE_GSL -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/testcootutils test-utils.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-shelx.dylib ./.libs/libcoot-coord-extras.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-map-heavy.0.dylib .libs/coot-map-heavy.o .libs/coot-fffear.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-map-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ./.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file 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-DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXChargeTable.lo -MD -MP -MF .deps/CXXChargeTable.Tpo -c -o CXXChargeTable.lo CXXChargeTable.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" 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-DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXException.lo -MD -MP -MF .deps/CXXException.Tpo -c -o CXXException.lo CXXException.cpp libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXSurfaceVertex.lo -MD -MP -MF .deps/CXXSurfaceVertex.Tpo -c CXXSurfaceVertex.cpp -fno-common -DPIC -o .libs/CXXSurfaceVertex.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXException.lo -MD -MP -MF .deps/CXXException.Tpo -c CXXException.cpp -fno-common -DPIC -o .libs/CXXException.o CXXSurface.cpp:497:24: warning: delete called on 'const CXXBall' that is abstract but has non-virtual destructor [-Wdelete-non-virtual-dtor] if (vdwBallPntrs[i]) delete vdwBallPntrs[i]; ^ CXXSurface.cpp:502:29: warning: delete called on 'const CXXBall' that is abstract but has non-virtual destructor [-Wdelete-non-virtual-dtor] if (contextBallPntrs[i]) delete contextBallPntrs[i]; ^ CXXSurface.cpp:549:24: warning: delete called on 'const CXXBall' that is abstract but has non-virtual destructor [-Wdelete-non-virtual-dtor] if (vdwBallPntrs[i]) delete vdwBallPntrs[i]; ^ CXXSurface.cpp:554:29: warning: delete called on 'const CXXBall' that is abstract but has non-virtual destructor [-Wdelete-non-virtual-dtor] if (contextBallPntrs[i]) delete contextBallPntrs[i]; ^ mv -f .deps/CXXChargeTable.Tpo .deps/CXXChargeTable.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXTorusElement.lo -MD -MP -MF .deps/CXXTorusElement.Tpo -c -o CXXTorusElement.lo CXXTorusElement.cpp libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXException.lo -MD -MP -MF .deps/CXXException.Tpo -c CXXException.cpp -o CXXException.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXSphereElement.lo -MD -MP -MF .deps/CXXSphereElement.Tpo -c CXXSphereElement.cpp -o CXXSphereElement.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXTorusElement.lo -MD -MP -MF .deps/CXXTorusElement.Tpo -c CXXTorusElement.cpp -fno-common -DPIC -o .libs/CXXTorusElement.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXSurfaceVertex.lo -MD -MP -MF .deps/CXXSurfaceVertex.Tpo -c CXXSurfaceVertex.cpp -o CXXSurfaceVertex.o >/dev/null 2>&1 mv -f .deps/CXXCircle.Tpo .deps/CXXCircle.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXFFTSolventMap.lo -MD -MP -MF .deps/CXXFFTSolventMap.Tpo -c -o CXXFFTSolventMap.lo CXXFFTSolventMap.cpp libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXFFTSolventMap.lo -MD -MP -MF .deps/CXXFFTSolventMap.Tpo -c CXXFFTSolventMap.cpp -fno-common -DPIC -o .libs/CXXFFTSolventMap.o mv -f .deps/CXXException.Tpo .deps/CXXException.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXTorusNode.lo -MD -MP -MF .deps/CXXTorusNode.Tpo -c -o CXXTorusNode.lo CXXTorusNode.cpp libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXTorusNode.lo -MD -MP -MF .deps/CXXTorusNode.Tpo -c CXXTorusNode.cpp -fno-common -DPIC -o .libs/CXXTorusNode.o mv -f .deps/CXXSurfaceVertex.Tpo .deps/CXXSurfaceVertex.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXFortranFile.lo -MD -MP -MF .deps/CXXFortranFile.Tpo -c -o CXXFortranFile.lo CXXFortranFile.cpp libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXCreator.lo -MD -MP -MF .deps/CXXCreator.Tpo -c CXXCreator.cpp -o CXXCreator.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXFortranFile.lo -MD -MP -MF .deps/CXXFortranFile.Tpo -c CXXFortranFile.cpp -fno-common -DPIC -o .libs/CXXFortranFile.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXFFTSolventMap.lo -MD -MP -MF .deps/CXXFFTSolventMap.Tpo -c CXXFFTSolventMap.cpp -o CXXFFTSolventMap.o >/dev/null 2>&1 mv -f .deps/CXXCircleNode.Tpo .deps/CXXCircleNode.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 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-I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXUtils.lo -MD -MP -MF .deps/CXXUtils.Tpo -c CXXUtils.cpp -o CXXUtils.o >/dev/null 2>&1 mv -f .deps/CXXNewHood.Tpo .deps/CXXNewHood.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I../coot-utils -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CXXQADSurface.lo -MD -MP -MF .deps/CXXQADSurface.Tpo -c CXXQADSurface.cpp -o CXXQADSurface.o >/dev/null 2>&1 mv -f .deps/CXXSurface.Tpo .deps/CXXSurface.Plo mv -f .deps/CXXQADSurfaceStaticData.Tpo .deps/CXXQADSurfaceStaticData.Plo mv -f .deps/CXXUtils.Tpo .deps/CXXUtils.Plo mv -f .deps/CXXBall.Tpo .deps/CXXBall.Plo mv -f .deps/CXXQADSurface.Tpo .deps/CXXQADSurface.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libccp4mg-surface.la -rpath /sw/lib CXXSphereElement.lo CXXChargeTable.lo CXXSphereNode.lo CXXCircle.lo CXXSphereTriangle.lo CXXCircleNode.lo CXXSphereTriangleEdge.lo CXXCoord.lo CXXSurface.lo CXXCreator.lo CXXSurfaceVertex.lo CXXException.lo CXXTorusElement.lo CXXFFTSolventMap.lo CXXTorusNode.lo CXXFortranFile.lo CXXNewHood.lo CXXTriangle.lo CXXNode.lo CXXQADSurface.lo CXXBall.lo CXXQADSurfaceStaticData.lo CXXSpace.lo CXXUtils.lo -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libccp4mg-surface.0.dylib .libs/CXXSphereElement.o .libs/CXXChargeTable.o .libs/CXXSphereNode.o .libs/CXXCircle.o .libs/CXXSphereTriangle.o .libs/CXXCircleNode.o .libs/CXXSphereTriangleEdge.o .libs/CXXCoord.o .libs/CXXSurface.o .libs/CXXCreator.o .libs/CXXSurfaceVertex.o .libs/CXXException.o .libs/CXXTorusElement.o .libs/CXXFFTSolventMap.o .libs/CXXTorusNode.o .libs/CXXFortranFile.o .libs/CXXNewHood.o .libs/CXXTriangle.o .libs/CXXNode.o .libs/CXXQADSurface.o .libs/CXXBall.o .libs/CXXQADSurfaceStaticData.o .libs/CXXSpace.o .libs/CXXUtils.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libccp4mg-surface.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libccp4mg-surface.0.dylib || : libtool: link: (cd ".libs" && rm -f "libccp4mg-surface.dylib" && ln -s "libccp4mg-surface.0.dylib" "libccp4mg-surface.dylib") libtool: link: ar cru .libs/libccp4mg-surface.a CXXSphereElement.o CXXChargeTable.o CXXSphereNode.o CXXCircle.o CXXSphereTriangle.o CXXCircleNode.o CXXSphereTriangleEdge.o CXXCoord.o CXXSurface.o CXXCreator.o CXXSurfaceVertex.o CXXException.o CXXTorusElement.o CXXFFTSolventMap.o CXXTorusNode.o CXXFortranFile.o CXXNewHood.o CXXTriangle.o CXXNode.o CXXQADSurface.o CXXBall.o CXXQADSurfaceStaticData.o CXXSpace.o CXXUtils.o /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libccp4mg-surface.a(CXXNode.o) has no symbols libtool: link: ranlib .libs/libccp4mg-surface.a /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libccp4mg-surface.a(CXXNode.o) has no symbols libtool: link: ( cd ".libs" && rm -f "libccp4mg-surface.la" && ln -s "../libccp4mg-surface.la" "libccp4mg-surface.la" ) Making all in coot-surface /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT coot-surface.lo -MD -MP -MF .deps/coot-surface.Tpo -c -o coot-surface.lo coot-surface.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT rgbreps.lo -MD -MP -MF .deps/rgbreps.Tpo -c -o rgbreps.lo rgbreps.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT rgbreps.lo -MD -MP -MF .deps/rgbreps.Tpo -c rgbreps.cc -fno-common -DPIC -o .libs/rgbreps.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT coot-surface.lo -MD -MP -MF .deps/coot-surface.Tpo -c coot-surface.cc -fno-common -DPIC -o .libs/coot-surface.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT rgbreps.lo -MD -MP -MF .deps/rgbreps.Tpo -c rgbreps.cc -o rgbreps.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT coot-surface.lo -MD -MP -MF .deps/coot-surface.Tpo -c coot-surface.cc -o coot-surface.o >/dev/null 2>&1 mv -f .deps/rgbreps.Tpo .deps/rgbreps.Plo mv -f .deps/coot-surface.Tpo .deps/coot-surface.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-surface.la -rpath /sw/lib coot-surface.lo rgbreps.lo ../surface/libccp4mg-surface.la -L/sw/lib -lglut -L/usr/X11R6/lib -lXmu -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm -lGL libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-surface.0.dylib .libs/coot-surface.o .libs/rgbreps.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../surface/.libs/libccp4mg-surface.dylib /sw/lib/libfreeglut.dylib -L/usr/X11R6/lib -lXmu /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -lGL -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcoot-surface.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-surface.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-surface.dylib" && ln -s "libcoot-surface.0.dylib" "libcoot-surface.dylib") libtool: link: ar cru .libs/libcoot-surface.a coot-surface.o rgbreps.o libtool: link: ranlib .libs/libcoot-surface.a libtool: link: ( cd ".libs" && rm -f "libcoot-surface.la" && ln -s "../libcoot-surface.la" "libcoot-surface.la" ) Making all in lidia-core /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT lbg-shared.lo -MD -MP -MF .deps/lbg-shared.Tpo -c -o lbg-shared.lo lbg-shared.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT lbg-molfile.lo -MD -MP -MF .deps/lbg-molfile.Tpo -c -o lbg-molfile.lo lbg-molfile.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 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-DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT rdkit-interface.lo -MD -MP -MF .deps/rdkit-interface.Tpo -c -o rdkit-interface.lo rdkit-interface.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cod-types.lo -MD -MP -MF .deps/cod-types.Tpo -c -o cod-types.lo cod-types.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT test-cod-atom-types.o -MD -MP -MF .deps/test-cod-atom-types.Tpo -c -o test-cod-atom-types.o test-cod-atom-types.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT lig-build.lo -MD -MP -MF .deps/lig-build.Tpo -c lig-build.cc -fno-common -DPIC -o .libs/lig-build.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT lbg-molfile.lo -MD -MP -MF .deps/lbg-molfile.Tpo -c lbg-molfile.cc -fno-common -DPIC -o .libs/lbg-molfile.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cod-types.lo -MD -MP -MF .deps/cod-types.Tpo -c cod-types.cc -fno-common -DPIC -o .libs/cod-types.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT rdkit-interface.lo -MD -MP -MF .deps/rdkit-interface.Tpo -c rdkit-interface.cc -fno-common -DPIC -o .libs/rdkit-interface.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT lbg-shared.lo -MD -MP -MF .deps/lbg-shared.Tpo -c lbg-shared.cc -fno-common -DPIC -o .libs/lbg-shared.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT lbg-shared.lo -MD -MP -MF .deps/lbg-shared.Tpo -c lbg-shared.cc -o lbg-shared.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT lig-build.lo -MD -MP -MF .deps/lig-build.Tpo -c lig-build.cc -o lig-build.o >/dev/null 2>&1 mv -f .deps/lbg-shared.Tpo .deps/lbg-shared.Plo mv -f .deps/lig-build.Tpo .deps/lig-build.Plo In file included from cod-types.cc:5: In file included from In file included from test-cod-atom-types.cc:./cod-types.hh:8: In file included from ./use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: 5: In file included from In file included from ./cod-types.hh/sw/include/rdkit/Query/QueryObjects.h:19: :8: In file included from ./use-rdkit.hhIn file included from /sw/include/rdkit/Query/Query.h:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from :19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:/sw/include/rdkit/GraphMol/Atom.h17:: 23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/boost/smart_ptr/shared_ptr.hpp/sw/include/rdkit/Query/Query.h::49119:: In file included from /sw/include/boost/smart_ptr.hpp:41: warning21: In file included from /sw/include/boost/shared_ptr.hpp: :rvalue references are a C++11 extension [-Wc++11-extensions] 17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] /sw/include/boost/smart_ptr/shared_ptr.hpp: shared_ptr & operator=( std::unique_ptr && r )556 : ^51 : warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp/sw/include/boost/smart_ptr/shared_ptr.hpp::558558::5555:: warningwarning: : rvalue references are a C++11 extension [-Wc++11-extensions]rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ In file included from rdkit-interface.cc:24: In file included from ./rdkit-interface.hh:24: In file included from ./use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT lbg-molfile.lo -MD -MP -MF .deps/lbg-molfile.Tpo -c lbg-molfile.cc -o lbg-molfile.o >/dev/null 2>&1 mv -f .deps/lbg-molfile.Tpo .deps/lbg-molfile.Plo 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cod-types.lo -MD -MP -MF .deps/cod-types.Tpo -c cod-types.cc -o cod-types.o >/dev/null 2>&1 3 warnings generated. mv -f .deps/test-cod-atom-types.Tpo .deps/test-cod-atom-types.Po 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT rdkit-interface.lo -MD -MP -MF .deps/rdkit-interface.Tpo -c rdkit-interface.cc -o rdkit-interface.o >/dev/null 2>&1 mv -f .deps/cod-types.Tpo .deps/cod-types.Plo mv -f .deps/rdkit-interface.Tpo .deps/rdkit-interface.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-lidia-core.la -rpath /sw/lib lbg-shared.lo lbg-molfile.lo lig-build.lo rdkit-interface.lo cod-types.lo ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-lidia-core.0.dylib .libs/lbg-shared.o .libs/lbg-molfile.o .libs/lig-build.o .libs/rdkit-interface.o .libs/cod-types.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm ../utils/.libs/libcoot-utils.dylib -L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-lidia-core.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-lidia-core.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.dylib" && ln -s "libcoot-lidia-core.0.dylib" "libcoot-lidia-core.dylib") libtool: link: ar cru .libs/libcoot-lidia-core.a lbg-shared.o lbg-molfile.o lig-build.o rdkit-interface.o cod-types.o libtool: link: ranlib .libs/libcoot-lidia-core.a libtool: link: ( cd ".libs" && rm -f "libcoot-lidia-core.la" && ln -s "../libcoot-lidia-core.la" "libcoot-lidia-core.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o test-cod-atom-types test-cod-atom-types.o libcoot-lidia-core.la ../coot-utils/libcoot-coord-utils.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " libtool: link: g++ -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/test-cod-atom-types test-cod-atom-types.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-lidia-core.dylib -L/sw/lib/rdkit ../coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python Making all in coords /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c -o Bond_lines.lo Bond_lines.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT Cartesian.lo -MD -MP -MF .deps/Cartesian.Tpo -c -o Cartesian.lo Cartesian.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT cos-sin.lo -MD -MP -MF .deps/cos-sin.Tpo -c -o cos-sin.lo cos-sin.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT mmdb-extras.lo -MD -MP -MF .deps/mmdb-extras.Tpo -c -o mmdb-extras.lo mmdb-extras.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT utils.lo -MD -MP -MF .deps/utils.Tpo -c -o utils.lo utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT mmdb.lo -MD -MP -MF .deps/mmdb.Tpo -c -o mmdb.lo mmdb.cc /bin/sh ../libtool --tag=CXX 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-DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT coot-close.lo -MD -MP -MF .deps/coot-close.Tpo -c -o coot-close.lo coot-close.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT coot-close.lo -MD -MP -MF .deps/coot-close.Tpo -c coot-close.cc -fno-common -DPIC -o .libs/coot-close.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT cos-sin.lo -MD -MP -MF .deps/cos-sin.Tpo -c cos-sin.cc -o cos-sin.o >/dev/null 2>&1 Cartesian.cc:78:6: warning: assigning field to itself [-Wself-assign-field] x_ = x_; ^ Cartesian.cc:79:6: warning: assigning field to itself [-Wself-assign-field] y_ = y_; ^ 2 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT Cartesian.lo -MD -MP -MF .deps/Cartesian.Tpo -c Cartesian.cc -o Cartesian.o >/dev/null 2>&1 mv -f .deps/cos-sin.Tpo .deps/cos-sin.Plo mv -f .deps/Cartesian.Tpo .deps/Cartesian.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT Bond_lines_ext.lo -MD -MP -MF .deps/Bond_lines_ext.Tpo -c Bond_lines_ext.cc -o Bond_lines_ext.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT mmdb-crystal.lo -MD -MP -MF .deps/mmdb-crystal.Tpo -c mmdb-crystal.cc -o mmdb-crystal.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT coot-close.lo -MD -MP -MF .deps/coot-close.Tpo -c coot-close.cc -o coot-close.o >/dev/null 2>&1 In file included from mmdb.cc:33: In file included from /sw/include/rdkit/GraphMol/FileParsers/FileParsers.h:14: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT mmdb-extras.lo -MD -MP -MF .deps/mmdb-extras.Tpo -c mmdb-extras.cc -o mmdb-extras.o >/dev/null 2>&1 mv -f .deps/coot-close.Tpo .deps/coot-close.Plo mv -f .deps/Bond_lines_ext.Tpo .deps/Bond_lines_ext.Plo mv -f .deps/mmdb-crystal.Tpo .deps/mmdb-crystal.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c Bond_lines.cc -o Bond_lines.o >/dev/null 2>&1 mv -f .deps/mmdb-extras.Tpo .deps/mmdb-extras.Plo 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT mmdb.lo -MD -MP -MF .deps/mmdb.Tpo -c mmdb.cc -o mmdb.o >/dev/null 2>&1 mv -f .deps/Bond_lines.Tpo .deps/Bond_lines.Plo mv -f .deps/mmdb.Tpo .deps/mmdb.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-coords.la -rpath /sw/lib Bond_lines.lo Cartesian.lo cos-sin.lo mmdb-extras.lo utils.lo mmdb.lo mmdb-crystal.lo Bond_lines_ext.lo coot-close.lo ../geometry/libcoot-geometry.la ../coot-utils/libcoot-shelx.la ../coot-utils/libcoot-coord-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -lmmdb -lm libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-coords.0.dylib .libs/Bond_lines.o .libs/Cartesian.o .libs/cos-sin.o .libs/mmdb-extras.o .libs/utils.o .libs/mmdb.o .libs/mmdb-crystal.o .libs/Bond_lines_ext.o .libs/coot-close.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../geometry/.libs/libcoot-geometry.dylib ../coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libmmdb.dylib -lm -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-coords.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-coords.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-coords.dylib" && ln -s "libcoot-coords.0.dylib" "libcoot-coords.dylib") libtool: link: ar cru .libs/libcoot-coords.a Bond_lines.o Cartesian.o cos-sin.o mmdb-extras.o utils.o mmdb.o mmdb-crystal.o Bond_lines_ext.o coot-close.o libtool: link: ranlib .libs/libcoot-coords.a libtool: link: ( cd ".libs" && rm -f "libcoot-coords.la" && ln -s "../libcoot-coords.la" "libcoot-coords.la" ) Making all in angles /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O1 -g -O2 -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c -o libcoot_AngleInfo_la-AngleInfo.lo `test -f 'AngleInfo.cc' || echo './'`AngleInfo.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O1 -g -O2 -MT libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo -c -o libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo `test -f 'AngleInfo-angle-torsions-autogen.cc' || echo './'`AngleInfo-angle-torsions-autogen.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O1 -g -O2 -MT libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo -c -o libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo `test -f 'AngleInfo-theta_2-autogen.cc' || echo './'`AngleInfo-theta_2-autogen.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O1 -g -O2 -MT libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo -c AngleInfo-angle-torsions-autogen.cc -fno-common -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O1 -g -O2 -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c AngleInfo.cc -fno-common -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O1 -g -O2 -MT libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo -c AngleInfo-theta_2-autogen.cc -fno-common -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O1 -g -O2 -MT libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo -c AngleInfo-theta_2-autogen.cc -o libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o >/dev/null 2>&1 mv -f .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O1 -g -O2 -MT libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo -c AngleInfo-angle-torsions-autogen.cc -o libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O1 -g -O2 -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c AngleInfo.cc -o libcoot_AngleInfo_la-AngleInfo.o >/dev/null 2>&1 mv -f .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Plo mv -f .deps/libcoot_AngleInfo_la-AngleInfo.Tpo .deps/libcoot_AngleInfo_la-AngleInfo.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O1 -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-AngleInfo.la -rpath /sw/lib libcoot_AngleInfo_la-AngleInfo.lo libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-AngleInfo.0.dylib .libs/libcoot_AngleInfo_la-AngleInfo.o .libs/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o .libs/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcoot-AngleInfo.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-AngleInfo.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-AngleInfo.dylib" && ln -s "libcoot-AngleInfo.0.dylib" "libcoot-AngleInfo.dylib") libtool: link: ar cru .libs/libcoot-AngleInfo.a libcoot_AngleInfo_la-AngleInfo.o libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o libtool: link: ranlib .libs/libcoot-AngleInfo.a libtool: link: ( cd ".libs" && rm -f "libcoot-AngleInfo.la" && ln -s "../libcoot-AngleInfo.la" "libcoot-AngleInfo.la" ) Making all in skeleton /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c -o dm-utils.lo dm-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c -o graphical_skel.lo graphical_skel.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c -o BuildCas.lo BuildCas.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c BuildCas.cc -fno-common -DPIC -o .libs/BuildCas.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c dm-utils.cc -fno-common -DPIC -o .libs/dm-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c graphical_skel.cc -fno-common -DPIC -o .libs/graphical_skel.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c dm-utils.cc -o dm-utils.o >/dev/null 2>&1 mv -f .deps/dm-utils.Tpo .deps/dm-utils.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c graphical_skel.cc -o graphical_skel.o >/dev/null 2>&1 mv -f .deps/graphical_skel.Tpo .deps/graphical_skel.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c BuildCas.cc -o BuildCas.o >/dev/null 2>&1 mv -f .deps/BuildCas.Tpo .deps/BuildCas.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-skeleton.la -rpath /sw/lib dm-utils.lo graphical_skel.lo BuildCas.lo ../angles/libcoot-AngleInfo.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-skeleton.0.dylib .libs/dm-utils.o .libs/graphical_skel.o .libs/BuildCas.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../angles/.libs/libcoot-AngleInfo.dylib ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-shelx.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-lidia-core.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-skeleton.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-skeleton.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-skeleton.dylib" && ln -s "libcoot-skeleton.0.dylib" "libcoot-skeleton.dylib") libtool: link: ar cru .libs/libcoot-skeleton.a dm-utils.o graphical_skel.o BuildCas.o libtool: link: ranlib .libs/libcoot-skeleton.a libtool: link: ( cd ".libs" && rm -f "libcoot-skeleton.la" && ln -s "../libcoot-skeleton.la" "libcoot-skeleton.la" ) Making all in ccp4mg-utils /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" 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-O2 -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c cartesian.cc -o cartesian.o >/dev/null 2>&1 mv -f .deps/cartesian.Tpo .deps/cartesian.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c geomutil.cc -o geomutil.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c quat.cc -o quat.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c matrix.cc -o matrix.o >/dev/null 2>&1 mv -f .deps/geomutil.Tpo .deps/geomutil.Plo mv -f .deps/quat.Tpo .deps/quat.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c ppmutil.cc -o ppmutil.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c mgtree.cc -o mgtree.o >/dev/null 2>&1 mv -f .deps/matrix.Tpo .deps/matrix.Plo mv -f .deps/ppmutil.Tpo .deps/ppmutil.Plo mv -f .deps/mgtree.Tpo .deps/mgtree.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libccp4mg-utils.la -rpath /sw/lib geomutil.lo mgtree.lo cartesian.lo matrix.lo quat.lo ppmutil.lo -lpng libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libccp4mg-utils.0.dylib .libs/geomutil.o .libs/mgtree.o .libs/cartesian.o .libs/matrix.o .libs/quat.o .libs/ppmutil.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries /sw/lib/libpng16.dylib -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libccp4mg-utils.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libccp4mg-utils.0.dylib || : libtool: link: (cd ".libs" && rm -f "libccp4mg-utils.dylib" && ln -s "libccp4mg-utils.0.dylib" "libccp4mg-utils.dylib") libtool: link: ar cru .libs/libccp4mg-utils.a geomutil.o mgtree.o cartesian.o matrix.o quat.o ppmutil.o libtool: link: ranlib .libs/libccp4mg-utils.a libtool: link: ( cd ".libs" && rm -f "libccp4mg-utils.la" && ln -s "../libccp4mg-utils.la" "libccp4mg-utils.la" ) Making all in density-contour /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c -o Vectors.lo Vectors.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c -o CIsoSurface.lo CIsoSurface.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c -o density-contour-triangles.lo density-contour-triangles.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c Vectors.cpp -fno-common -DPIC -o .libs/Vectors.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c density-contour-triangles.cc -fno-common -DPIC -o .libs/density-contour-triangles.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c CIsoSurface.cpp -fno-common -DPIC -o .libs/CIsoSurface.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c Vectors.cpp -o Vectors.o >/dev/null 2>&1 mv -f .deps/Vectors.Tpo .deps/Vectors.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c density-contour-triangles.cc -o density-contour-triangles.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c CIsoSurface.cpp -o CIsoSurface.o >/dev/null 2>&1 mv -f .deps/density-contour-triangles.Tpo .deps/density-contour-triangles.Plo mv -f .deps/CIsoSurface.Tpo .deps/CIsoSurface.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-isosurface.la -rpath /sw/lib Vectors.lo CIsoSurface.lo density-contour-triangles.lo ../coords/libcoot-coords.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-isosurface.0.dylib .libs/Vectors.o .libs/CIsoSurface.o .libs/density-contour-triangles.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../coords/.libs/libcoot-coords.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libmmdb.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lm -lpthread -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-shelx.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-lidia-core.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-isosurface.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-isosurface.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-isosurface.dylib" && ln -s "libcoot-isosurface.0.dylib" "libcoot-isosurface.dylib") libtool: link: ar cru .libs/libcoot-isosurface.a Vectors.o CIsoSurface.o density-contour-triangles.o libtool: link: ranlib .libs/libcoot-isosurface.a libtool: link: ( cd ".libs" && rm -f "libcoot-isosurface.la" && ln -s "../libcoot-isosurface.la" "libcoot-isosurface.la" ) Making all in db-main /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT db-main.lo -MD -MP -MF .deps/db-main.Tpo -c -o db-main.lo db-main.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT db-strands.lo -MD -MP -MF .deps/db-strands.Tpo -c -o db-strands.lo db-strands.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT testdbmain.o -MD -MP -MF .deps/testdbmain.Tpo -c -o testdbmain.o testdbmain.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -MT train-pepflip.o -MD -MP -MF .deps/train-pepflip.Tpo -c -o train-pepflip.o train-pepflip.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT db-strands.lo -MD -MP -MF .deps/db-strands.Tpo -c db-strands.cc -fno-common -DPIC -o .libs/db-strands.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT db-main.lo -MD -MP -MF .deps/db-main.Tpo -c db-main.cc -fno-common -DPIC -o .libs/db-main.o mv -f .deps/testdbmain.Tpo .deps/testdbmain.Po mv -f .deps/train-pepflip.Tpo .deps/train-pepflip.Po libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT db-strands.lo -MD -MP -MF .deps/db-strands.Tpo -c db-strands.cc -o db-strands.o >/dev/null 2>&1 mv -f .deps/db-strands.Tpo .deps/db-strands.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -MT db-main.lo -MD -MP -MF .deps/db-main.Tpo -c db-main.cc -o db-main.o >/dev/null 2>&1 mv -f .deps/db-main.Tpo .deps/db-main.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-db-main.la -rpath /sw/lib db-main.lo db-strands.lo ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-db-main.0.dylib .libs/db-main.o .libs/db-strands.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../mini-mol/.libs/libcoot-mini-mol.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-db-main.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-db-main.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-db-main.dylib" && ln -s "libcoot-db-main.0.dylib" "libcoot-db-main.dylib") libtool: link: ar cru .libs/libcoot-db-main.a db-main.o db-strands.o libtool: link: ranlib .libs/libcoot-db-main.a libtool: link: ( cd ".libs" && rm -f "libcoot-db-main.la" && ln -s "../libcoot-db-main.la" "libcoot-db-main.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o testdbmain testdbmain.o libcoot-db-main.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -DDATADIR='"/sw/share"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o train-pepflip train-pepflip.o libcoot-db-main.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/train-pepflip train-pepflip.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-db-main.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib ../geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -DDATADIR=\"/sw/share\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/testdbmain testdbmain.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-db-main.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib ../geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm Making all in ideal /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT simple-restraint.lo -MD -MP -MF .deps/simple-restraint.Tpo -c -o simple-restraint.lo simple-restraint.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 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-DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT extra-restraints.lo -MD -MP -MF .deps/extra-restraints.Tpo -c -o extra-restraints.lo extra-restraints.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" 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-fno-common -DPIC -o .libs/torsion-bonds.o mv -f .deps/pepflip.Tpo .deps/pepflip.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT coot-compare-residues.lo -MD -MP -MF .deps/coot-compare-residues.Tpo -c -o coot-compare-residues.lo coot-compare-residues.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT coot-compare-residues.lo -MD -MP -MF .deps/coot-compare-residues.Tpo -c coot-compare-residues.cc -fno-common -DPIC -o .libs/coot-compare-residues.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT simple-restraint-kk.lo -MD -MP -MF .deps/simple-restraint-kk.Tpo -c simple-restraint-kk.cc -o simple-restraint-kk.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT regularize-minimol.lo -MD -MP -MF .deps/regularize-minimol.Tpo -c regularize-minimol.cc -o regularize-minimol.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT extra-restraints-kk.lo -MD -MP -MF .deps/extra-restraints-kk.Tpo -c extra-restraints-kk.cc -o extra-restraints-kk.o >/dev/null 2>&1 simple-restraint.cc:589:7: warning: logical not is only applied to the left hand side of this comparison [-Wlogical-not-parentheses] if (! at->GetUDData(udd_atom_index_handle, idx) == UDDATA_Ok) { ^ ~~ libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT chirals.lo -MD -MP -MF .deps/chirals.Tpo -c chirals.cc -o chirals.o >/dev/null 2>&1 simple-restraint.cc:589:7: note: add parentheses after the '!' to evaluate the comparison first if (! at->GetUDData(udd_atom_index_handle, idx) == UDDATA_Ok) { ^ ( ) simple-restraint.cc:589:7: note: add parentheses around left hand side expression to silence this warning if (! at->GetUDData(udd_atom_index_handle, idx) == UDDATA_Ok) { ^ ( ) libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT extra-restraints.lo -MD -MP -MF .deps/extra-restraints.Tpo -c extra-restraints.cc -o extra-restraints.o >/dev/null 2>&1 mv -f .deps/simple-restraint-kk.Tpo .deps/simple-restraint-kk.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT link-restraints.lo -MD -MP -MF .deps/link-restraints.Tpo -c -o link-restraints.lo link-restraints.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT link-restraints.lo -MD -MP -MF .deps/link-restraints.Tpo -c link-restraints.cc -fno-common -DPIC -o .libs/link-restraints.o mv -f .deps/regularize-minimol.Tpo .deps/regularize-minimol.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT parallel-planes.lo -MD -MP -MF .deps/parallel-planes.Tpo -c -o parallel-planes.lo parallel-planes.cc mv -f .deps/extra-restraints-kk.Tpo .deps/extra-restraints-kk.Plo g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT mini-rsr.o -MD -MP -MF .deps/mini-rsr.Tpo -c -o mini-rsr.o mini-rsr.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT parallel-planes.lo -MD -MP -MF .deps/parallel-planes.Tpo -c parallel-planes.cc -fno-common -DPIC -o .libs/parallel-planes.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT torsion-bonds.lo -MD -MP -MF .deps/torsion-bonds.Tpo -c torsion-bonds.cc -o torsion-bonds.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT coot-compare-residues.lo -MD -MP -MF .deps/coot-compare-residues.Tpo -c coot-compare-residues.cc -o coot-compare-residues.o >/dev/null 2>&1 mv -f .deps/chirals.Tpo .deps/chirals.Plo g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT with-geometry.o -MD -MP -MF .deps/with-geometry.Tpo -c -o with-geometry.o with-geometry.cc mv -f .deps/extra-restraints.Tpo .deps/extra-restraints.Plo g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT logramatest.o -MD -MP -MF .deps/logramatest.Tpo -c -o logramatest.o logramatest.cpp libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT parallel-planes.lo -MD -MP -MF .deps/parallel-planes.Tpo -c parallel-planes.cc -o parallel-planes.o >/dev/null 2>&1 mv -f .deps/coot-compare-residues.Tpo .deps/coot-compare-residues.Plo mv -f .deps/logramatest.Tpo .deps/logramatest.Po mv -f .deps/parallel-planes.Tpo .deps/parallel-planes.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT link-restraints.lo -MD -MP -MF .deps/link-restraints.Tpo -c link-restraints.cc -o link-restraints.o >/dev/null 2>&1 mv -f .deps/torsion-bonds.Tpo .deps/torsion-bonds.Plo mv -f .deps/with-geometry.Tpo .deps/with-geometry.Po 1 warning generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -MT simple-restraint.lo -MD -MP -MF .deps/simple-restraint.Tpo -c simple-restraint.cc -o simple-restraint.o >/dev/null 2>&1 mv -f .deps/mini-rsr.Tpo .deps/mini-rsr.Po mv -f .deps/link-restraints.Tpo .deps/link-restraints.Plo mv -f .deps/simple-restraint.Tpo .deps/simple-restraint.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -L/sw/lib -lgsl -lgslcblas -lmmdb -lm -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-ideal.la -rpath /sw/lib simple-restraint.lo chirals.lo extra-restraints.lo pepflip.lo regularize-minimol.lo lograma.lo extra-restraints-kk.lo simple-restraint-kk.lo torsion-bonds.lo coot-compare-residues.lo link-restraints.lo parallel-planes.lo ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la -L/sw/lib -lgsl -lgslcblas -lmmdb -lm -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-ideal.0.dylib .libs/simple-restraint.o .libs/chirals.o .libs/extra-restraints.o .libs/pepflip.o .libs/regularize-minimol.o .libs/lograma.o .libs/extra-restraints-kk.o .libs/simple-restraint-kk.o .libs/torsion-bonds.o .libs/coot-compare-residues.o .libs/link-restraints.o .libs/parallel-planes.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-utils.dylib ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../coot-utils/.libs/libcoot-coord-extras.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../utils/.libs/libcoot-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libmmdb.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lm -lpthread -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-map-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-shelx.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-lidia-core.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-ideal.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-ideal.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-ideal.dylib" && ln -s "libcoot-ideal.0.dylib" "libcoot-ideal.dylib") libtool: link: ar cru .libs/libcoot-ideal.a simple-restraint.o chirals.o extra-restraints.o pepflip.o regularize-minimol.o lograma.o extra-restraints-kk.o simple-restraint-kk.o torsion-bonds.o coot-compare-residues.o link-restraints.o parallel-planes.o libtool: link: ranlib .libs/libcoot-ideal.a libtool: link: ( cd ".libs" && rm -f "libcoot-ideal.la" && ln -s "../libcoot-ideal.la" "libcoot-ideal.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -L/sw/lib -lgsl -lgslcblas -lmmdb -lm -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o mini-rsr mini-rsr.o ./libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-shelx.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la ../mini-mol/libcoot-mini-mol.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm -L/sw/lib -lgsl -lgslcblas /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -L/sw/lib -lgsl -lgslcblas -lmmdb -lm -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o with-geometry with-geometry.o ./libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-utils/libcoot-shelx.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm -L/sw/lib -lgsl -lgslcblas /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -L/sw/lib -lgsl -lgslcblas -lmmdb -lm -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o logramatest logramatest.o ./libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -L/sw/lib -lgsl -lgslcblas libtool: link: g++ -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/logramatest logramatest.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-ideal.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-utils.dylib ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../coot-utils/.libs/libcoot-coord-extras.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libmmdb.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lm -lpthread /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib libtool: link: g++ -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/with-geometry with-geometry.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-ideal.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-utils.dylib ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../coot-utils/.libs/libcoot-shelx.dylib ../coot-utils/.libs/libcoot-coord-extras.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../utils/.libs/libcoot-utils.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib libtool: link: g++ -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/mini-rsr mini-rsr.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-ideal.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-utils.dylib ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../coot-utils/.libs/libcoot-map-utils.dylib ../coot-utils/.libs/libcoot-shelx.dylib ../coot-utils/.libs/libcoot-coord-extras.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib ../compat/.libs/libcoot-compat.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib Making all in ligand /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT ligand.lo -MD -MP -MF .deps/ligand.Tpo -c -o ligand.lo ligand.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT ligand-extras.lo -MD -MP -MF .deps/ligand-extras.Tpo -c -o ligand-extras.lo ligand-extras.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT residue_by_phi_psi.lo -MD -MP -MF .deps/residue_by_phi_psi.Tpo -c -o residue_by_phi_psi.lo residue_by_phi_psi.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT wiggly-ligand.lo -MD -MP -MF .deps/wiggly-ligand.Tpo -c -o wiggly-ligand.lo wiggly-ligand.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT monomer-utils.lo -MD -MP -MF .deps/monomer-utils.Tpo -c -o monomer-utils.lo monomer-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT dunbrack.lo -MD -MP -MF .deps/dunbrack.Tpo -c -o dunbrack.lo dunbrack.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT chi-angles-autogen.lo -MD -MP -MF .deps/chi-angles-autogen.Tpo -c -o chi-angles-autogen.lo chi-angles-autogen.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT chi-angles.lo -MD -MP -MF .deps/chi-angles.Tpo -c -o chi-angles.lo chi-angles.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT ligand-extras.lo -MD -MP -MF .deps/ligand-extras.Tpo -c ligand-extras.cc -fno-common -DPIC -o .libs/ligand-extras.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT ligand.lo -MD -MP -MF .deps/ligand.Tpo -c ligand.cc -fno-common -DPIC -o .libs/ligand.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT monomer-utils.lo -MD -MP -MF .deps/monomer-utils.Tpo -c monomer-utils.cc -fno-common -DPIC -o .libs/monomer-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT dunbrack.lo -MD -MP -MF .deps/dunbrack.Tpo -c dunbrack.cc -fno-common -DPIC -o .libs/dunbrack.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT wiggly-ligand.lo -MD -MP -MF .deps/wiggly-ligand.Tpo -c wiggly-ligand.cc -fno-common -DPIC -o .libs/wiggly-ligand.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT chi-angles-autogen.lo -MD -MP -MF .deps/chi-angles-autogen.Tpo -c chi-angles-autogen.cc -fno-common -DPIC -o .libs/chi-angles-autogen.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT residue_by_phi_psi.lo -MD -MP -MF .deps/residue_by_phi_psi.Tpo -c residue_by_phi_psi.cc -fno-common -DPIC -o .libs/residue_by_phi_psi.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT chi-angles.lo -MD -MP -MF .deps/chi-angles.Tpo -c chi-angles.cc -fno-common -DPIC -o .libs/chi-angles.o ligand-extras.cc:706:21: warning: comparison of unsigned expression >= 0 is always true [-Wtautological-compare] if (isolution >=0 && isolution < final_ligand[iclust].size()) ~~~~~~~~~ ^ ~ libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT chi-angles-autogen.lo -MD -MP -MF .deps/chi-angles-autogen.Tpo -c chi-angles-autogen.cc -o chi-angles-autogen.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT monomer-utils.lo -MD -MP -MF .deps/monomer-utils.Tpo -c monomer-utils.cc -o monomer-utils.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT residue_by_phi_psi.lo -MD -MP -MF .deps/residue_by_phi_psi.Tpo -c residue_by_phi_psi.cc -o residue_by_phi_psi.o >/dev/null 2>&1 1 warning generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT dunbrack.lo -MD -MP -MF .deps/dunbrack.Tpo -c dunbrack.cc -o dunbrack.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT ligand-extras.lo -MD -MP -MF .deps/ligand-extras.Tpo -c ligand-extras.cc -o ligand-extras.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT chi-angles.lo -MD -MP -MF .deps/chi-angles.Tpo -c chi-angles.cc -o chi-angles.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT wiggly-ligand.lo -MD -MP -MF .deps/wiggly-ligand.Tpo -c wiggly-ligand.cc -o wiggly-ligand.o >/dev/null 2>&1 mv -f 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-I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT primitive-chi-angles.lo -MD -MP -MF .deps/primitive-chi-angles.Tpo -c primitive-chi-angles.cc -fno-common -DPIC -o .libs/primitive-chi-angles.o mv -f .deps/ligand.Tpo .deps/ligand.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT dipole.lo -MD -MP -MF .deps/dipole.Tpo -c -o dipole.lo dipole.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT torsion-general.lo -MD -MP -MF .deps/torsion-general.Tpo -c torsion-general.cc -o torsion-general.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT dipole.lo -MD -MP -MF .deps/dipole.Tpo -c dipole.cc -fno-common -DPIC -o .libs/dipole.o mv -f .deps/richardson-rotamer.Tpo .deps/richardson-rotamer.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c -o base-pairing.lo base-pairing.cc mv -f .deps/torsion-general.Tpo .deps/torsion-general.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 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-DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT find-ligand.o -MD -MP -MF .deps/find-ligand.Tpo -c -o find-ligand.o find-ligand.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" 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-DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT rotamer.lo -MD -MP -MF .deps/rotamer.Tpo -c rotamer.cc -o rotamer.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c base-pairing.cc -fno-common -DPIC -o .libs/base-pairing.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c backrub-rotamer.cc -fno-common -DPIC -o .libs/backrub-rotamer.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT dipole.lo -MD -MP -MF .deps/dipole.Tpo -c dipole.cc -o dipole.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c base-pairing.cc -o base-pairing.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT rotamer-tables.lo -MD -MP -MF .deps/rotamer-tables.Tpo -c rotamer-tables.cc -o rotamer-tables.o >/dev/null 2>&1 mv -f .deps/primitive-chi-angles.Tpo .deps/primitive-chi-angles.Plo mv -f .deps/find-waters.Tpo .deps/find-waters.Po libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GSL -I/sw/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c backrub-rotamer.cc -o backrub-rotamer.o >/dev/null 2>&1 mv -f .deps/base-pairing.Tpo .deps/base-pairing.Plo mv -f .deps/dipole.Tpo .deps/dipole.Plo mv -f .deps/find-ligand.Tpo .deps/find-ligand.Po mv -f .deps/rotamer.Tpo .deps/rotamer.Plo mv -f .deps/backrub-rotamer.Tpo .deps/backrub-rotamer.Plo mv -f .deps/rotamer-tables.Tpo .deps/rotamer-tables.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-ligand.la -rpath /sw/lib ligand.lo ligand-extras.lo residue_by_phi_psi.lo wiggly-ligand.lo monomer-utils.lo dunbrack.lo chi-angles-autogen.lo chi-angles.lo helix-placement.lo fast-ss-search.lo rigid-body.lo ideal-rna.lo richardson-rotamers.lo richardson-rotamer.lo rotamer.lo torsion-general.lo rotamer-tables.lo primitive-chi-angles.lo dipole.lo base-pairing.lo backrub-rotamer.lo ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coords/libcoot-coords.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../utils/libcoot-utils.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-ligand.0.dylib .libs/ligand.o .libs/ligand-extras.o .libs/residue_by_phi_psi.o .libs/wiggly-ligand.o .libs/monomer-utils.o .libs/dunbrack.o .libs/chi-angles-autogen.o .libs/chi-angles.o .libs/helix-placement.o .libs/fast-ss-search.o .libs/rigid-body.o .libs/ideal-rna.o .libs/richardson-rotamers.o .libs/richardson-rotamer.o .libs/rotamer.o .libs/torsion-general.o .libs/rotamer-tables.o .libs/primitive-chi-angles.o .libs/dipole.o .libs/base-pairing.o .libs/backrub-rotamer.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../ideal/.libs/libcoot-ideal.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-utils.dylib /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib ../db-main/.libs/libcoot-db-main.dylib ../ccp4mg-utils/.libs/libccp4mg-utils.dylib /sw/lib/libpng16.dylib ../geometry/.libs/libcoot-geometry.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python ../coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-map-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm -Wl,-dylib_file 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-Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-coord-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-ligand.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-ligand.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-ligand.dylib" && ln -s "libcoot-ligand.0.dylib" "libcoot-ligand.dylib") libtool: link: ar cru .libs/libcoot-ligand.a ligand.o ligand-extras.o residue_by_phi_psi.o wiggly-ligand.o monomer-utils.o dunbrack.o chi-angles-autogen.o chi-angles.o helix-placement.o fast-ss-search.o rigid-body.o ideal-rna.o richardson-rotamers.o richardson-rotamer.o rotamer.o torsion-general.o rotamer-tables.o primitive-chi-angles.o dipole.o base-pairing.o backrub-rotamer.o libtool: link: ranlib .libs/libcoot-ligand.a libtool: link: ( cd ".libs" && rm -f "libcoot-ligand.la" && ln -s "../libcoot-ligand.la" "libcoot-ligand.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o findligand-real find-ligand.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../coot-utils/libcoot-shelx.la ../mini-mol/libcoot-mini-mol.la ../compat/libcoot-compat.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm -L/sw/lib -lgsl -lgslcblas /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o findwaters-real find-waters.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../ccp4mg-utils/libccp4mg-utils.la ../db-main/libcoot-db-main.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../coot-utils/libcoot-shelx.la ../mini-mol/libcoot-mini-mol.la ../compat/libcoot-compat.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm -L/sw/lib -lgsl -lgslcblas libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/findligand-real find-ligand.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-ligand.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ideal/.libs/libcoot-ideal.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/db-main/.libs/libcoot-db-main.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils/.libs/libccp4mg-utils.dylib ../ideal/.libs/libcoot-ideal.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-utils.dylib ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../db-main/.libs/libcoot-db-main.dylib ../ccp4mg-utils/.libs/libccp4mg-utils.dylib /sw/lib/libpng16.dylib ../coot-utils/.libs/libcoot-map-utils.dylib ../coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../utils/.libs/libcoot-utils.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib ../coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../compat/.libs/libcoot-compat.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/findwaters-real find-waters.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-ligand.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ideal/.libs/libcoot-ideal.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/db-main/.libs/libcoot-db-main.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils/.libs/libccp4mg-utils.dylib ../ideal/.libs/libcoot-ideal.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-utils.dylib ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../ccp4mg-utils/.libs/libccp4mg-utils.dylib /sw/lib/libpng16.dylib ../db-main/.libs/libcoot-db-main.dylib ../coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-map-utils.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../utils/.libs/libcoot-utils.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib ../coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../compat/.libs/libcoot-compat.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib Making all in high-res /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT high-res.lo -MD -MP -MF .deps/high-res.Tpo -c -o high-res.lo high-res.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT coot-atom-graph.lo -MD -MP -MF .deps/coot-atom-graph.Tpo -c -o coot-atom-graph.lo coot-atom-graph.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT residue-distortions.lo -MD -MP -MF .deps/residue-distortions.Tpo -c -o residue-distortions.lo residue-distortions.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT sequence-assignment.lo -MD -MP -MF .deps/sequence-assignment.Tpo -c -o sequence-assignment.lo sequence-assignment.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT residue-distortions.lo -MD -MP -MF .deps/residue-distortions.Tpo -c residue-distortions.cc -fno-common -DPIC -o .libs/residue-distortions.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT coot-atom-graph.lo -MD -MP -MF .deps/coot-atom-graph.Tpo -c coot-atom-graph.cc -fno-common -DPIC -o .libs/coot-atom-graph.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT sequence-assignment.lo -MD -MP -MF .deps/sequence-assignment.Tpo -c sequence-assignment.cc -fno-common -DPIC -o .libs/sequence-assignment.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT high-res.lo -MD -MP -MF .deps/high-res.Tpo -c high-res.cc -fno-common -DPIC -o .libs/high-res.o In file included from coot-atom-graph.cc:26: ./coot-atom-graph.hh:113:7: warning: control may reach end of non-void function [-Wreturn-type] } ^ In file included from residue-distortions.cc:21: ./coot-atom-graph.hh:113:7: warning: control may reach end of non-void function [-Wreturn-type] } ^ In file included from high-res.cc:27: ./coot-atom-graph.hh:113:7: warning: control may reach end of non-void function [-Wreturn-type] } ^ 1 warning generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT residue-distortions.lo -MD -MP -MF .deps/residue-distortions.Tpo -c residue-distortions.cc -o residue-distortions.o >/dev/null 2>&1 1 warning generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT high-res.lo -MD -MP -MF .deps/high-res.Tpo -c high-res.cc -o high-res.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT sequence-assignment.lo -MD -MP -MF .deps/sequence-assignment.Tpo -c sequence-assignment.cc -o sequence-assignment.o >/dev/null 2>&1 1 warning generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DHAVE_GSL -I/sw/include -g -O2 -MT coot-atom-graph.lo -MD -MP -MF .deps/coot-atom-graph.Tpo -c coot-atom-graph.cc -o coot-atom-graph.o >/dev/null 2>&1 mv -f .deps/residue-distortions.Tpo .deps/residue-distortions.Plo mv -f .deps/high-res.Tpo .deps/high-res.Plo mv -f .deps/sequence-assignment.Tpo .deps/sequence-assignment.Plo mv -f .deps/coot-atom-graph.Tpo .deps/coot-atom-graph.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/sw/include -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-high-res.la -rpath /sw/lib high-res.lo coot-atom-graph.lo residue-distortions.lo sequence-assignment.lo ../mini-mol/libcoot-mini-mol.la ../ligand/libcoot-ligand.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-high-res.0.dylib .libs/high-res.o .libs/coot-atom-graph.o .libs/residue-distortions.o .libs/sequence-assignment.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../mini-mol/.libs/libcoot-mini-mol.dylib ../ligand/.libs/libcoot-ligand.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ideal/.libs/libcoot-ideal.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-heavy.dylib /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/db-main/.libs/libcoot-db-main.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils/.libs/libccp4mg-utils.dylib /sw/lib/libpng16.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python 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-install_name /sw/lib/libcoot-high-res.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-high-res.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-high-res.dylib" && ln -s "libcoot-high-res.0.dylib" "libcoot-high-res.dylib") libtool: link: ar cru .libs/libcoot-high-res.a high-res.o coot-atom-graph.o residue-distortions.o sequence-assignment.o libtool: link: ranlib .libs/libcoot-high-res.a libtool: link: ( cd ".libs" && rm -f "libcoot-high-res.la" && ln -s "../libcoot-high-res.la" "libcoot-high-res.la" ) Making all in build /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 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-DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT testcabuild.o -MD -MP -MF .deps/testcabuild.Tpo -c -o testcabuild.o testcabuild.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CalphaBuild.lo -MD -MP -MF .deps/CalphaBuild.Tpo -c CalphaBuild.cc -fno-common -DPIC -o .libs/CalphaBuild.o mv -f .deps/testcabuild.Tpo .deps/testcabuild.Po libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT CalphaBuild.lo -MD -MP -MF .deps/CalphaBuild.Tpo -c CalphaBuild.cc -o CalphaBuild.o >/dev/null 2>&1 mv -f .deps/CalphaBuild.Tpo .deps/CalphaBuild.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-cabuild.la -rpath /sw/lib CalphaBuild.lo ../angles/libcoot-AngleInfo.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-cabuild.0.dylib .libs/CalphaBuild.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../angles/.libs/libcoot-AngleInfo.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libmmdb.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lm -lpthread -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcoot-cabuild.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-cabuild.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-cabuild.dylib" && ln -s "libcoot-cabuild.0.dylib" "libcoot-cabuild.dylib") libtool: link: ar cru .libs/libcoot-cabuild.a CalphaBuild.o libtool: link: ranlib .libs/libcoot-cabuild.a libtool: link: ( cd ".libs" && rm -f "libcoot-cabuild.la" && ln -s "../libcoot-cabuild.la" "libcoot-cabuild.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o testcabuild testcabuild.o ./libcoot-cabuild.la ../angles/libcoot-AngleInfo.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/testcabuild testcabuild.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-cabuild.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/angles/.libs/libcoot-AngleInfo.dylib ../angles/.libs/libcoot-AngleInfo.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm Making all in greg-tests make[1]: Nothing to be done for `all'. Making all in python-tests make[1]: Nothing to be done for `all'. Making all in analysis /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT bfkurt.lo -MD -MP -MF .deps/bfkurt.Tpo -c -o bfkurt.lo bfkurt.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT mogul.lo -MD -MP -MF .deps/mogul.Tpo -c -o mogul.lo mogul.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT kolmogorov.lo -MD -MP -MF .deps/kolmogorov.Tpo -c -o kolmogorov.lo kolmogorov.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cablam.lo -MD -MP -MF .deps/cablam.Tpo -c -o cablam.lo cablam.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT bfactan.o -MD -MP -MF .deps/bfactan.Tpo -c -o bfactan.o bfactan.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT bfkurt.lo -MD -MP -MF .deps/bfkurt.Tpo -c bfkurt.cc -fno-common -DPIC -o .libs/bfkurt.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cablam.lo -MD -MP -MF .deps/cablam.Tpo -c cablam.cc -fno-common -DPIC -o .libs/cablam.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT mogul.lo -MD -MP -MF .deps/mogul.Tpo -c mogul.cc -fno-common -DPIC -o .libs/mogul.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT kolmogorov.lo -MD -MP -MF .deps/kolmogorov.Tpo -c kolmogorov.cc -fno-common -DPIC -o .libs/kolmogorov.o mv -f .deps/bfactan.Tpo .deps/bfactan.Po libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT kolmogorov.lo -MD -MP -MF .deps/kolmogorov.Tpo -c kolmogorov.cc -o kolmogorov.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cablam.lo -MD -MP -MF .deps/cablam.Tpo -c cablam.cc -o cablam.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT bfkurt.lo -MD -MP -MF .deps/bfkurt.Tpo -c bfkurt.cc -o bfkurt.o >/dev/null 2>&1 mv -f .deps/kolmogorov.Tpo .deps/kolmogorov.Plo mv -f .deps/cablam.Tpo .deps/cablam.Plo mv -f .deps/bfkurt.Tpo .deps/bfkurt.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT mogul.lo -MD -MP -MF .deps/mogul.Tpo -c mogul.cc -o mogul.o >/dev/null 2>&1 mv -f .deps/mogul.Tpo .deps/mogul.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-analysis.la -rpath /sw/lib bfkurt.lo mogul.lo kolmogorov.lo cablam.lo ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -lmmdb -lm -L/sw/lib -lgsl -lgslcblas libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-analysis.0.dylib .libs/bfkurt.o .libs/mogul.o .libs/kolmogorov.o .libs/cablam.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib ../geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread ../utils/.libs/libcoot-utils.dylib /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -install_name /sw/lib/libcoot-analysis.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-analysis.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-analysis.dylib" && ln -s "libcoot-analysis.0.dylib" "libcoot-analysis.dylib") libtool: link: ar cru .libs/libcoot-analysis.a bfkurt.o mogul.o kolmogorov.o cablam.o libtool: link: ranlib .libs/libcoot-analysis.a libtool: link: ( cd ".libs" && rm -f "libcoot-analysis.la" && ln -s "../libcoot-analysis.la" "libcoot-analysis.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o bfactan bfactan.o libcoot-analysis.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/bfactan bfactan.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-analysis.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib ../geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm Making all in tw /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT tw.lo -MD -MP -MF .deps/tw.Tpo -c -o tw.lo tw.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT tiddly.o -MD -MP -MF .deps/tiddly.Tpo -c -o tiddly.o tiddly.cc mv -f .deps/tiddly.Tpo .deps/tiddly.Po libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT tw.lo -MD -MP -MF .deps/tw.Tpo -c tw.cc -fno-common -DPIC -o .libs/tw.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT tw.lo -MD -MP -MF .deps/tw.Tpo -c tw.cc -o tw.o >/dev/null 2>&1 mv -f .deps/tw.Tpo .deps/tw.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-tw.la -rpath /sw/lib tw.lo libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-tw.0.dylib .libs/tw.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcoot-tw.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcoot-tw.0.dylib || : warning: no debug symbols in executable (-arch x86_64) libtool: link: (cd ".libs" && rm -f "libcoot-tw.dylib" && ln -s "libcoot-tw.0.dylib" "libcoot-tw.dylib") libtool: link: ar cru .libs/libcoot-tw.a tw.o /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libcoot-tw.a(tw.o) has no symbols libtool: link: ranlib .libs/libcoot-tw.a /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libcoot-tw.a(tw.o) has no symbols warning: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: warning for library: .libs/libcoot-tw.a the table of contents is empty (no object file members in the library define global symbols) libtool: link: ( cd ".libs" && rm -f "libcoot-tw.la" && ln -s "../libcoot-tw.la" "libcoot-tw.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o coot-tiddly tiddly.o libcoot-tw.la -L/sw/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lfreetype -lfontconfig libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/coot-tiddly tiddly.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-tw.dylib /sw/lib/libgtk-x11-2.0.dylib /sw/lib/libgdk-x11-2.0.dylib /sw/lib/libgdk_pixbuf-2.0.dylib /sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib /sw/lib/libatk-1.0.dylib /sw/lib/libcairo.dylib /sw/lib/libgio-2.0.dylib /sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib /sw/lib/pango-ft219/lib/libpango-1.0.dylib /sw/lib/libgobject-2.0.dylib /sw/lib/libgmodule-2.0.dylib /sw/lib/libglib-2.0.dylib /sw/lib/freetype219/lib/libfreetype.dylib /sw/lib/fontconfig2/lib/libfontconfig.dylib -pthread clang: warning: argument unused during compilation: '-pthread' Making all in libgtkgraph /bin/sh ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT annotation.lo -MD -MP -MF .deps/annotation.Tpo -c -o annotation.lo annotation.c /bin/sh ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT polar_util.lo -MD -MP -MF .deps/polar_util.Tpo -c -o polar_util.lo polar_util.c /bin/sh ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT trace.lo -MD -MP -MF .deps/trace.Tpo -c -o trace.lo trace.c /bin/sh ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT axis.lo -MD -MP -MF .deps/axis.Tpo -c -o axis.lo axis.c /bin/sh ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT gtkgraph.lo -MD -MP -MF .deps/gtkgraph.Tpo -c -o gtkgraph.lo gtkgraph.c /bin/sh ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT polar.lo -MD -MP -MF .deps/polar.Tpo -c -o polar.lo polar.c /bin/sh ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT smith.lo -MD -MP -MF .deps/smith.Tpo -c -o smith.lo smith.c libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT axis.lo -MD -MP -MF .deps/axis.Tpo -c axis.c -fno-common -DPIC -o .libs/axis.o libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT polar_util.lo -MD -MP -MF .deps/polar_util.Tpo -c polar_util.c -fno-common -DPIC -o .libs/polar_util.o libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT annotation.lo -MD -MP -MF .deps/annotation.Tpo -c annotation.c -fno-common -DPIC -o .libs/annotation.o libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT smith.lo -MD -MP -MF .deps/smith.Tpo -c smith.c -fno-common -DPIC -o .libs/smith.o libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT gtkgraph.lo -MD -MP -MF .deps/gtkgraph.Tpo -c gtkgraph.c -fno-common -DPIC -o .libs/gtkgraph.o libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT polar.lo -MD -MP -MF .deps/polar.Tpo -c polar.c -fno-common -DPIC -o .libs/polar.o libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT trace.lo -MD -MP -MF .deps/trace.Tpo -c trace.c -fno-common -DPIC -o .libs/trace.o trace.c:133:23: warning: implicitly declaring library function 'malloc' with type 'void *(unsigned long)' t->Xdata = (gfloat *) malloc (n * sizeof(gfloat)); ^ trace.c:133:23: note: please include the header or explicitly provide a declaration for 'malloc' 1 warning generated. libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT polar_util.lo -MD -MP -MF .deps/polar_util.Tpo -c polar_util.c -o polar_util.o >/dev/null 2>&1 libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT annotation.lo -MD -MP -MF .deps/annotation.Tpo -c annotation.c -o annotation.o >/dev/null 2>&1 libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT polar.lo -MD -MP -MF .deps/polar.Tpo -c polar.c -o polar.o >/dev/null 2>&1 libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT axis.lo -MD -MP -MF .deps/axis.Tpo -c axis.c -o axis.o >/dev/null 2>&1 libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT smith.lo -MD -MP -MF .deps/smith.Tpo -c smith.c -o smith.o >/dev/null 2>&1 libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT trace.lo -MD -MP -MF .deps/trace.Tpo -c trace.c -o trace.o >/dev/null 2>&1 libtool: compile: gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT gtkgraph.lo -MD -MP -MF .deps/gtkgraph.Tpo -c gtkgraph.c -o gtkgraph.o >/dev/null 2>&1 mv -f .deps/polar_util.Tpo .deps/polar_util.Plo mv -f .deps/axis.Tpo .deps/axis.Plo mv -f .deps/polar.Tpo .deps/polar.Plo mv -f .deps/smith.Tpo .deps/smith.Plo mv -f .deps/trace.Tpo .deps/trace.Plo mv -f .deps/annotation.Tpo .deps/annotation.Plo mv -f .deps/gtkgraph.Tpo .deps/gtkgraph.Plo /bin/sh ../libtool --tag=CC --mode=link gcc -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-gtkgraph.la -rpath /sw/lib annotation.lo polar_util.lo trace.lo axis.lo gtkgraph.lo polar.lo smith.lo -L/sw/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lfreetype -lfontconfig -lm libtool: link: gcc -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-gtkgraph.0.dylib .libs/annotation.o .libs/polar_util.o .libs/trace.o .libs/axis.o .libs/gtkgraph.o .libs/polar.o .libs/smith.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries /sw/lib/libgtk-x11-2.0.dylib /sw/lib/libgdk-x11-2.0.dylib /sw/lib/libgdk_pixbuf-2.0.dylib /sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib /sw/lib/libatk-1.0.dylib /sw/lib/libcairo.dylib /sw/lib/libgio-2.0.dylib /sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib /sw/lib/pango-ft219/lib/libpango-1.0.dylib /sw/lib/libgobject-2.0.dylib /sw/lib/libgmodule-2.0.dylib /sw/lib/libglib-2.0.dylib /sw/lib/freetype219/lib/libfreetype.dylib /sw/lib/fontconfig2/lib/libfontconfig.dylib -lm -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -pthread -install_name /sw/lib/libcoot-gtkgraph.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module clang: warning: argument unused during compilation: '-pthread' libtool: link: dsymutil .libs/libcoot-gtkgraph.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-gtkgraph.dylib" && ln -s "libcoot-gtkgraph.0.dylib" "libcoot-gtkgraph.dylib") libtool: link: ar cru .libs/libcoot-gtkgraph.a annotation.o polar_util.o trace.o axis.o gtkgraph.o polar.o smith.o libtool: link: ranlib .libs/libcoot-gtkgraph.a libtool: link: ( cd ".libs" && rm -f "libcoot-gtkgraph.la" && ln -s "../libcoot-gtkgraph.la" "libcoot-gtkgraph.la" ) Making all in lbg /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT lbg.lo -MD -MP -MF .deps/lbg.Tpo -c -o lbg.lo lbg.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT wmolecule.lo -MD -MP -MF .deps/wmolecule.Tpo -c -o wmolecule.lo wmolecule.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT lbg-search.lo -MD -MP -MF .deps/lbg-search.Tpo -c -o lbg-search.lo lbg-search.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT residue-circles.lo -MD -MP -MF .deps/residue-circles.Tpo -c -o residue-circles.lo residue-circles.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT pi-stacking.lo -MD -MP -MF .deps/pi-stacking.Tpo -c -o pi-stacking.lo pi-stacking.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 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-DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT flev-annotations.lo -MD -MP -MF .deps/flev-annotations.Tpo -c flev-annotations.cc -fno-common -DPIC -o .libs/flev-annotations.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT lbg-drag-and-drop.lo -MD -MP -MF .deps/lbg-drag-and-drop.Tpo -c lbg-drag-and-drop.cc -fno-common -DPIC -o .libs/lbg-drag-and-drop.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT qed-interface.lo -MD -MP -MF .deps/qed-interface.Tpo -c qed-interface.cc -fno-common -DPIC -o .libs/qed-interface.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT flev-annotations.lo -MD -MP -MF .deps/flev-annotations.Tpo -c flev-annotations.cc -o flev-annotations.o >/dev/null 2>&1 mv -f .deps/flev-annotations.Tpo .deps/flev-annotations.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT alerts.lo -MD -MP -MF .deps/alerts.Tpo -c -o alerts.lo alerts.cc In file included from pi-stacking.cc:13: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT alerts.lo -MD -MP -MF .deps/alerts.Tpo -c alerts.cc -fno-common -DPIC -o .libs/alerts.o In file included from lbg-search.cc:34: In file included from ./lbg.hh:37: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:In file included from 16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from In file included from residue-circles.cc:28lbg-drag-and-drop.cc/sw/include/rdkit/GraphMol/Atom.h::: 11In file included from 23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: ./lbg.hh: :37In file included from In file included from /sw/include/rdkit/Query/Query.h:: In file included from ../lidia-core/rdkit-interface.hh19./lbg.hh: In file included from :24: :37/sw/include/boost/smart_ptr.hppIn file included from : :21: In file included from /sw/include/boost/shared_ptr.hpp/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hhIn file included from ::17: 16: /sw/include/boost/smart_ptr/shared_ptr.hppIn file included from /sw/include/rdkit/GraphMol/RDKitBase.h../lidia-core/rdkit-interface.hh:24:491:22: In file included from : /sw/include/rdkit/GraphMol/Atom.h:In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh::4116: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:2223: In file included from : In file included from /sw/include/rdkit/Query/QueryObjects.h::19: /sw/include/rdkit/GraphMol/Atom.hIn file included from /sw/include/rdkit/Query/Query.h: warning: 19: In file included from :23rvalue references are a C++11 extension [-Wc++11-extensions] /sw/include/boost/smart_ptr.hpp:21: : In file included from In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/rdkit/Query/QueryObjects.h/sw/include/boost/smart_ptr/shared_ptr.hpp:491:19: :In file included from 41:/sw/include/rdkit/Query/Query.h :warning19: : In file included from /sw/include/boost/smart_ptr.hpp:rvalue references are a C++11 extension [-Wc++11-extensions] 21 shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ : In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions]/sw/include/boost/smart_ptr/shared_ptr.hpp:556:51 : warning: shared_ptr & operator=( std::unique_ptr && r ) ^ rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ In file included from wmolecule.cc:33: In file included from ./lbg.hh:37: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ In file included from alerts.cc:23: In file included from ./lbg.hh:37: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ In file included from qed-interface.cc:5: In file included from /sw/include/boost/python.hpp:11: In file included from /sw/include/boost/python/args.hpp:25: In file included from /sw/include/boost/python/object_core.hpp:14: In file included from /sw/include/boost/python/call.hpp:15: In file included from /sw/include/boost/python/converter/arg_to_python.hpp:15: In file included from /sw/include/boost/python/converter/shared_ptr_to_python.hpp:10: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ In file included from lbg.cc:40: In file included from /sw/include/rdkit/GraphMol/FileParsers/FileParsers.h:14: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ 3 warnings generated. 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT pi-stacking.lo -MD -MP -MF .deps/pi-stacking.Tpo -c pi-stacking.cc -o pi-stacking.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT lbg-drag-and-drop.lo -MD -MP -MF .deps/lbg-drag-and-drop.Tpo -c lbg-drag-and-drop.cc -o lbg-drag-and-drop.o >/dev/null 2>&1 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT lbg-search.lo -MD -MP -MF .deps/lbg-search.Tpo -c lbg-search.cc -o lbg-search.o >/dev/null 2>&1 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT alerts.lo -MD -MP -MF .deps/alerts.Tpo -c alerts.cc -o alerts.o >/dev/null 2>&1 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT qed-interface.lo -MD -MP -MF .deps/qed-interface.Tpo -c qed-interface.cc -o qed-interface.o >/dev/null 2>&1 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT residue-circles.lo -MD -MP -MF .deps/residue-circles.Tpo -c residue-circles.cc -o residue-circles.o >/dev/null 2>&1 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT wmolecule.lo -MD -MP -MF .deps/wmolecule.Tpo -c wmolecule.cc -o wmolecule.o >/dev/null 2>&1 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT lbg.lo -MD -MP -MF .deps/lbg.Tpo -c lbg.cc -o lbg.o >/dev/null 2>&1 mv -f .deps/pi-stacking.Tpo .deps/pi-stacking.Plo mv -f .deps/alerts.Tpo .deps/alerts.Plo mv -f .deps/qed-interface.Tpo .deps/qed-interface.Plo mv -f .deps/lbg-drag-and-drop.Tpo .deps/lbg-drag-and-drop.Plo mv -f .deps/lbg-search.Tpo .deps/lbg-search.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT alerts-list.lo -MD -MP -MF .deps/alerts-list.Tpo -c -o alerts-list.lo alerts-list.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT lidia-main.o -MD -MP -MF .deps/lidia-main.Tpo -c -o lidia-main.o lidia-main.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -g -O2 -MT lbg-callbacks-outer.o -MD -MP -MF .deps/lbg-callbacks-outer.Tpo -c -o lbg-callbacks-outer.o lbg-callbacks-outer.cc mv -f .deps/residue-circles.Tpo .deps/residue-circles.Plo libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT alerts-list.lo -MD -MP -MF .deps/alerts-list.Tpo -c alerts-list.cc -fno-common -DPIC -o .libs/alerts-list.o mv -f .deps/wmolecule.Tpo .deps/wmolecule.Plo In file included from lidia-main.cc:44: In file included from ./lbg.hh:37: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] In file included from alerts-list.cc:10: In file included from ./lbg.hh:37: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17 shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() : ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp/sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] :558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ In file included from lbg-callbacks-outer.cc:2: In file included from ./lbg-callbacks.cc:31: In file included from ./lbg.hh:37: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ 3 warnings generated. mv -f .deps/lidia-main.Tpo .deps/lidia-main.Po 3 warnings generated. mv -f .deps/lbg-callbacks-outer.Tpo .deps/lbg-callbacks-outer.Po 3 warnings generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DMAKE_ENHANCED_LIGAND_TOOLS -I/sw/include/rdkit -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -MT alerts-list.lo -MD -MP -MF .deps/alerts-list.Tpo -c alerts-list.cc -o alerts-list.o >/dev/null 2>&1 mv -f .deps/alerts-list.Tpo .deps/alerts-list.Plo mv -f .deps/lbg.Tpo .deps/lbg.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-lidia.la -rpath /sw/lib lbg.lo wmolecule.lo lbg-search.lo residue-circles.lo pi-stacking.lo flev-annotations.lo lbg-drag-and-drop.lo qed-interface.lo alerts.lo alerts-list.lo ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm -L/sw/lib -lgsl -lgslcblas "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lgoocanvas -L/sw/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lfreetype -lfontconfig libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-lidia.0.dylib .libs/lbg.o .libs/wmolecule.o .libs/lbg-search.o .libs/residue-circles.o .libs/pi-stacking.o .libs/flev-annotations.o .libs/lbg-drag-and-drop.o .libs/qed-interface.o .libs/alerts.o .libs/alerts-list.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../coot-utils/.libs/libcoot-coord-utils.dylib ../geometry/.libs/libcoot-geometry.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libgoocanvas.dylib /sw/lib/libgtk-x11-2.0.dylib /sw/lib/libgdk-x11-2.0.dylib /sw/lib/libgdk_pixbuf-2.0.dylib /sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib /sw/lib/libatk-1.0.dylib /sw/lib/libcairo.dylib /sw/lib/libgio-2.0.dylib /sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib /sw/lib/pango-ft219/lib/libpango-1.0.dylib /sw/lib/libgobject-2.0.dylib /sw/lib/libgmodule-2.0.dylib /sw/lib/libglib-2.0.dylib /sw/lib/freetype219/lib/libfreetype.dylib /sw/lib/fontconfig2/lib/libfontconfig.dylib -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -pthread -install_name /sw/lib/libcoot-lidia.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module clang: warning: argument unused during compilation: '-pthread' libtool: link: dsymutil .libs/libcoot-lidia.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-lidia.dylib" && ln -s "libcoot-lidia.0.dylib" "libcoot-lidia.dylib") libtool: link: ar cru .libs/libcoot-lidia.a lbg.o wmolecule.o lbg-search.o residue-circles.o pi-stacking.o flev-annotations.o lbg-drag-and-drop.o qed-interface.o alerts.o alerts-list.o libtool: link: ranlib .libs/libcoot-lidia.a libtool: link: ( cd ".libs" && rm -f "libcoot-lidia.la" && ln -s "../libcoot-lidia.la" "libcoot-lidia.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o lidia lidia-main.o lbg-callbacks-outer.o ./libcoot-lidia.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm -L/sw/lib -lgsl -lgslcblas "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lgoocanvas -L/sw/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lfreetype -lfontconfig -L/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/config -ldl -framework CoreFoundation -lpython2.7 -ldl -lutil libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/lidia lidia-main.o lbg-callbacks-outer.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcoot-lidia.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../geometry/.libs/libcoot-geometry.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../utils/.libs/libcoot-utils.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libgoocanvas.dylib /sw/lib/libgtk-x11-2.0.dylib /sw/lib/libgdk-x11-2.0.dylib /sw/lib/libgdk_pixbuf-2.0.dylib /sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib /sw/lib/libatk-1.0.dylib /sw/lib/libcairo.dylib /sw/lib/libgio-2.0.dylib /sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib /sw/lib/pango-ft219/lib/libpango-1.0.dylib /sw/lib/libgobject-2.0.dylib /sw/lib/libgmodule-2.0.dylib /sw/lib/libglib-2.0.dylib /sw/lib/freetype219/lib/libfreetype.dylib /sw/lib/fontconfig2/lib/libfontconfig.dylib -L/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/config -framework CoreFoundation -lpython2.7 -ldl -lutil -pthread clang: warning: argument unused during compilation: '-pthread' Making all in cootaneer /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 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-DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c buccaneer-lib.cpp -fno-common -DPIC -o .libs/buccaneer-lib.o mv -f .deps/cootaneer-demo.Tpo .deps/cootaneer-demo.Po libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c buccaneer-lib.cpp -o buccaneer-lib.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT buccaneer-prot.lo -MD -MP -MF .deps/buccaneer-prot.Tpo -c buccaneer-prot.cpp -o buccaneer-prot.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cootaneer-sequence.lo -MD -MP -MF .deps/cootaneer-sequence.Tpo -c cootaneer-sequence.cpp -o cootaneer-sequence.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT buccaneer-sequence.lo -MD -MP -MF .deps/buccaneer-sequence.Tpo -c buccaneer-sequence.cpp -o buccaneer-sequence.o >/dev/null 2>&1 mv -f .deps/buccaneer-lib.Tpo .deps/buccaneer-lib.Plo mv -f .deps/cootaneer-sequence.Tpo .deps/cootaneer-sequence.Plo mv -f .deps/buccaneer-prot.Tpo .deps/buccaneer-prot.Plo mv -f .deps/buccaneer-sequence.Tpo .deps/buccaneer-sequence.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcootaneer.la -rpath /sw/lib buccaneer-lib.lo buccaneer-prot.lo buccaneer-sequence.lo cootaneer-sequence.lo -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcootaneer.0.dylib .libs/buccaneer-lib.o .libs/buccaneer-prot.o .libs/buccaneer-sequence.o .libs/cootaneer-sequence.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libmmdb.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lm -lpthread -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcootaneer.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcootaneer.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcootaneer.dylib" && ln -s "libcootaneer.0.dylib" "libcootaneer.dylib") libtool: link: ar cru .libs/libcootaneer.a buccaneer-lib.o buccaneer-prot.o buccaneer-sequence.o cootaneer-sequence.o libtool: link: ranlib .libs/libcootaneer.a libtool: link: ( cd ".libs" && rm -f "libcootaneer.la" && ln -s "../libcootaneer.la" "libcootaneer.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o cootaneer-demo cootaneer-demo.o ./libcootaneer.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/cootaneer-demo cootaneer-demo.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcootaneer.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm Making all in cootilus /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nucleicacid_db.lo -MD -MP -MF .deps/nucleicacid_db.Tpo -c -o nucleicacid_db.lo nucleicacid_db.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-tools.lo -MD -MP -MF .deps/nautilus-tools.Tpo -c -o nautilus-tools.lo nautilus-tools.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-ss-find.lo -MD -MP -MF .deps/nautilus-ss-find.Tpo -c -o nautilus-ss-find.lo nautilus-ss-find.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-join.lo -MD -MP -MF .deps/nautilus-join.Tpo -c -o nautilus-join.lo nautilus-join.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c -o nautilus-target.lo nautilus-target.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cootilus-build.lo -MD -MP -MF .deps/cootilus-build.Tpo -c -o cootilus-build.lo cootilus-build.cpp g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cootilus-demo.o -MD -MP -MF .deps/cootilus-demo.Tpo -c -o cootilus-demo.o cootilus-demo.cpp libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nucleicacid_db.lo -MD -MP -MF .deps/nucleicacid_db.Tpo -c nucleicacid_db.cpp -fno-common -DPIC -o .libs/nucleicacid_db.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c nautilus-target.cpp -fno-common -DPIC -o .libs/nautilus-target.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-join.lo -MD -MP -MF .deps/nautilus-join.Tpo -c nautilus-join.cpp -fno-common -DPIC -o .libs/nautilus-join.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-ss-find.lo -MD -MP -MF .deps/nautilus-ss-find.Tpo -c nautilus-ss-find.cpp -fno-common -DPIC -o .libs/nautilus-ss-find.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-tools.lo -MD -MP -MF .deps/nautilus-tools.Tpo -c nautilus-tools.cpp -fno-common -DPIC -o .libs/nautilus-tools.o libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cootilus-build.lo -MD -MP -MF .deps/cootilus-build.Tpo -c cootilus-build.cpp -fno-common -DPIC -o .libs/cootilus-build.o mv -f .deps/cootilus-demo.Tpo .deps/cootilus-demo.Po libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-ss-find.lo -MD -MP -MF .deps/nautilus-ss-find.Tpo -c nautilus-ss-find.cpp -o nautilus-ss-find.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT cootilus-build.lo -MD -MP -MF .deps/cootilus-build.Tpo -c cootilus-build.cpp -o cootilus-build.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nucleicacid_db.lo -MD -MP -MF .deps/nucleicacid_db.Tpo -c nucleicacid_db.cpp -o nucleicacid_db.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-tools.lo -MD -MP -MF .deps/nautilus-tools.Tpo -c nautilus-tools.cpp -o nautilus-tools.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-join.lo -MD -MP -MF .deps/nautilus-join.Tpo -c nautilus-join.cpp -o nautilus-join.o >/dev/null 2>&1 libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c nautilus-target.cpp -o nautilus-target.o >/dev/null 2>&1 mv -f .deps/nautilus-ss-find.Tpo .deps/nautilus-ss-find.Plo mv -f .deps/cootilus-build.Tpo .deps/cootilus-build.Plo mv -f .deps/nucleicacid_db.Tpo .deps/nucleicacid_db.Plo mv -f .deps/nautilus-tools.Tpo .deps/nautilus-tools.Plo mv -f .deps/nautilus-join.Tpo .deps/nautilus-join.Plo mv -f .deps/nautilus-target.Tpo .deps/nautilus-target.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcootilus.la -rpath /sw/lib nucleicacid_db.lo nautilus-tools.lo nautilus-ss-find.lo nautilus-join.lo nautilus-target.lo cootilus-build.lo -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcootilus.0.dylib .libs/nucleicacid_db.o .libs/nautilus-tools.o .libs/nautilus-ss-find.o .libs/nautilus-join.o .libs/nautilus-target.o .libs/cootilus-build.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libmmdb.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lm -lpthread -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -install_name /sw/lib/libcootilus.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module libtool: link: dsymutil .libs/libcootilus.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcootilus.dylib" && ln -s "libcootilus.0.dylib" "libcootilus.dylib") libtool: link: ar cru .libs/libcootilus.a nucleicacid_db.o nautilus-tools.o nautilus-ss-find.o nautilus-join.o nautilus-target.o cootilus-build.o libtool: link: ranlib .libs/libcootilus.a libtool: link: ( cd ".libs" && rm -f "libcootilus.la" && ln -s "../libcootilus.la" "libcootilus.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o cootilus-demo cootilus-demo.o ./libcootilus.la -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm libtool: link: g++ -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/cootilus-demo cootilus-demo.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ./.libs/libcootilus.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm Making all in goograph /bin/sh ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT goograph.lo -MD -MP -MF .deps/goograph.Tpo -c -o goograph.lo goograph.cc libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT goograph.lo -MD -MP -MF .deps/goograph.Tpo -c goograph.cc -fno-common -DPIC -o .libs/goograph.o In file included from goograph.cc:25: ./goograph.hh:47:3: warning: expression result unused [-Wunused-value] y_data_are_ints; ^~~~~~~~~~~~~~~ 1 warning generated. libtool: compile: g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -g -O2 -MT goograph.lo -MD -MP -MF .deps/goograph.Tpo -c goograph.cc -o goograph.o >/dev/null 2>&1 mv -f .deps/goograph.Tpo .deps/goograph.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o libcoot-goograph.la -rpath /sw/lib goograph.lo ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/sw/lib -lgoocanvas -L/sw/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lfreetype -lfontconfig libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o .libs/libcoot-goograph.0.dylib .libs/goograph.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../lidia-core/.libs/libcoot-lidia-core.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python ../utils/.libs/libcoot-utils.dylib /sw/lib/libgoocanvas.dylib /sw/lib/libgtk-x11-2.0.dylib /sw/lib/libgdk-x11-2.0.dylib /sw/lib/libgdk_pixbuf-2.0.dylib /sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib /sw/lib/libatk-1.0.dylib /sw/lib/libcairo.dylib /sw/lib/libgio-2.0.dylib /sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib /sw/lib/pango-ft219/lib/libpango-1.0.dylib /sw/lib/libgobject-2.0.dylib /sw/lib/libgmodule-2.0.dylib /sw/lib/libglib-2.0.dylib /sw/lib/freetype219/lib/libfreetype.dylib /sw/lib/fontconfig2/lib/libfontconfig.dylib -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-geometry.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-mini-mol.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib -Wl,-dylib_file -Wl,/sw/lib/libcoot-utils.0.dylib:/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -pthread -install_name /sw/lib/libcoot-goograph.0.dylib -compatibility_version 1 -current_version 1.0 -Wl,-single_module clang: warning: argument unused during compilation: '-pthread' libtool: link: dsymutil .libs/libcoot-goograph.0.dylib || : libtool: link: (cd ".libs" && rm -f "libcoot-goograph.dylib" && ln -s "libcoot-goograph.0.dylib" "libcoot-goograph.dylib") libtool: link: ar cru .libs/libcoot-goograph.a goograph.o libtool: link: ranlib .libs/libcoot-goograph.a libtool: link: ( cd ".libs" && rm -f "libcoot-goograph.la" && ln -s "../libcoot-goograph.la" "libcoot-goograph.la" ) Making all in src g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o main.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 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-I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-gtk2.o -MD -MP -MF .deps/c-interface-gtk2.Tpo -c -o c-interface-gtk2.o c-interface-gtk2.cc g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include 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-I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-info.o -MD -MP -MF .deps/c-interface-info.Tpo -c -o c-interface-info.o c-interface-info.cc c-inner-main.c:286:6: warning: implicit declaration of function 'handle_command_line_data' is invalid in C99 [-Wimplicit-function-declaration] handle_command_line_data(closure); ^ 1 warning generated. mv -f .deps/c-inner-main.Tpo .deps/c-inner-main.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-kk.o -MD -MP -MF .deps/c-interface-kk.Tpo -c -o c-interface-kk.o c-interface-kk.cc In file included from c-interface-analysis.cc:27: ../goograph/goograph.hh:47:3: warning: expression result unused [-Wunused-value] y_data_are_ints; ^~~~~~~~~~~~~~~ mv -f .deps/c-interface-gtk2.Tpo .deps/c-interface-gtk2.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-ligands.o -MD -MP -MF .deps/c-interface-ligands.Tpo -c -o c-interface-ligands.o c-interface-ligands.cc mv -f .deps/c-interface-kk.Tpo .deps/c-interface-kk.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-ligands-gui.o -MD -MP -MF .deps/c-interface-ligands-gui.Tpo -c -o c-interface-ligands-gui.o c-interface-ligands-gui.cc 1 warning generated. mv -f .deps/c-interface-analysis.Tpo .deps/c-interface-analysis.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-maps.o -MD -MP -MF .deps/c-interface-maps.Tpo -c -o c-interface-maps.o c-interface-maps.cc mv -f .deps/c-interface-build-gui.Tpo .deps/c-interface-build-gui.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-mmdb.o -MD -MP -MF .deps/c-interface-mmdb.Tpo -c -o c-interface-mmdb.o c-interface-mmdb.cc In file included from c-interface-ligands-gui.cc:34: In file included from ../lbg/lbg.hh:37: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ mv -f .deps/main.Tpo .deps/main.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-mogul.o -MD -MP -MF .deps/c-interface-mogul.Tpo -c -o c-interface-mogul.o c-interface-mogul.cc mv -f .deps/c-interface-gui.Tpo .deps/c-interface-gui.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-mogul-scripting.o -MD -MP -MF .deps/c-interface-mogul-scripting.Tpo -c -o c-interface-mogul-scripting.o c-interface-mogul-scripting.cc mv -f .deps/c-interface-mogul-scripting.Tpo .deps/c-interface-mogul-scripting.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-mutate.o -MD -MP -MF .deps/c-interface-mutate.Tpo -c -o c-interface-mutate.o c-interface-mutate.cc mv -f .deps/c-interface-info.Tpo .deps/c-interface-info.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-ncs.o -MD -MP -MF .deps/c-interface-ncs.Tpo -c -o c-interface-ncs.o c-interface-ncs.cc In file included from c-interface-mogul.cc:11: In file included from ./cc-interface-mogul.hh:9: ../goograph/goograph.hh:47:3: warning: expression result unused [-Wunused-value] y_data_are_ints; ^~~~~~~~~~~~~~~ mv -f .deps/c-interface-mmdb.Tpo .deps/c-interface-mmdb.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE 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-I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-nucleotides.o -MD -MP -MF .deps/c-interface-nucleotides.Tpo -c -o c-interface-nucleotides.o c-interface-nucleotides.cc 1 warning generated. mv -f .deps/c-interface-mogul.Tpo .deps/c-interface-mogul.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-python.o -MD -MP -MF .deps/c-interface-python.Tpo -c -o c-interface-python.o c-interface-python.cc mv -f .deps/c-interface-maps.Tpo .deps/c-interface-maps.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-pisa.o -MD -MP -MF .deps/c-interface-pisa.Tpo -c -o c-interface-pisa.o c-interface-pisa.cc mv -f .deps/c-interface-ligands.Tpo .deps/c-interface-ligands.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 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-DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-widgets.o -MD -MP -MF .deps/c-interface-widgets.Tpo -c -o c-interface-widgets.o c-interface-widgets.cc mv -f .deps/c-interface-preferences.Tpo .deps/c-interface-preferences.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-waters.o -MD -MP -MF .deps/c-interface-waters.Tpo -c -o c-interface-waters.o c-interface-waters.cc mv -f .deps/c-interface-sfs.Tpo .deps/c-interface-sfs.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-waters-gui.o -MD -MP -MF .deps/c-interface-waters-gui.Tpo -c -o c-interface-waters-gui.o c-interface-waters-gui.cc mv -f .deps/c-interface-scm.Tpo .deps/c-interface-scm.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface.o -MD -MP -MF .deps/c-interface.Tpo -c -o c-interface.o c-interface.cc mv -f .deps/c-interface-sequence.Tpo .deps/c-interface-sequence.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT c-interface-test.o -MD -MP -MF .deps/c-interface-test.Tpo -c -o c-interface-test.o c-interface-test.cc mv -f .deps/c-interface-superpose.Tpo .deps/c-interface-superpose.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT callbacks.o -MD -MP -MF .deps/callbacks.Tpo -c -o callbacks.o callbacks.c mv -f .deps/c-interface-view.Tpo .deps/c-interface-view.Po callbacks.c:2099:4: warning: implicit declaration of function 'execute_ligand_search' is invalid in C99 [-Wimplicit-function-declaration] execute_ligand_search(); ^ g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT cmtz-interface.o -MD -MP -MF .deps/cmtz-interface.Tpo -c -o cmtz-interface.o cmtz-interface.cc mv -f .deps/c-interface-widgets.Tpo .deps/c-interface-widgets.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT command-line.o -MD -MP -MF .deps/command-line.Tpo -c -o command-line.o command-line.cc callbacks.c:12088:3: warning: implicit declaration of function 'clear_multi_residue_torsion_mode' is invalid in C99 [-Wimplicit-function-declaration] clear_multi_residue_torsion_mode(); ^ callbacks.c:12113:5: warning: implicit declaration of function 'set_multi_residue_torsion_reverse_mode' is invalid in C99 [-Wimplicit-function-declaration] set_multi_residue_torsion_reverse_mode(1); ^ callbacks.c:12131:3: warning: implicit declaration of function 'show_multi_residue_torsion_dialog' is invalid in C99 [-Wimplicit-function-declaration] show_multi_residue_torsion_dialog(); ^ callbacks.c:12164:3: warning: implicit declaration of function 'setup_multi_residue_torsion' is invalid in C99 [-Wimplicit-function-declaration] setup_multi_residue_torsion(); // shows a dialog ^ mv -f .deps/c-interface-waters.Tpo .deps/c-interface-waters.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT coot-colour.o -MD -MP -MF .deps/coot-colour.Tpo -c -o coot-colour.o coot-colour.cc 5 warnings generated. mv -f .deps/callbacks.Tpo .deps/callbacks.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT coot-align.o -MD -MP -MF .deps/coot-align.Tpo -c -o coot-align.o coot-align.cc In file included from c-interface-test.cc:139: ../goograph/goograph.hh:47:3: warning: expression result unused [-Wunused-value] y_data_are_ints; ^~~~~~~~~~~~~~~ mv -f .deps/c-interface-validate.Tpo .deps/c-interface-validate.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT coot-nomenclature.o -MD -MP -MF .deps/coot-nomenclature.Tpo -c -o coot-nomenclature.o coot-nomenclature.cc mv -f .deps/c-interface-waters-gui.Tpo .deps/c-interface-waters-gui.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT coot-glue.o -MD -MP -MF .deps/coot-glue.Tpo -c -o coot-glue.o coot-glue.c mv -f .deps/coot-colour.Tpo .deps/coot-colour.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT coot-glue-gtk2.o -MD -MP -MF .deps/coot-glue-gtk2.Tpo -c -o coot-glue-gtk2.o coot-glue-gtk2.c mv -f .deps/coot-glue.Tpo .deps/coot-glue.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT coot-glue-gtk2-python.o -MD -MP -MF .deps/coot-glue-gtk2-python.Tpo -c -o coot-glue-gtk2-python.o coot-glue-gtk2-python.cc mv -f .deps/coot-glue-gtk2-python.Tpo .deps/coot-glue-gtk2-python.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 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-DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT coot-hydrogens.o -MD -MP -MF .deps/coot-hydrogens.Tpo -c -o coot-hydrogens.o coot-hydrogens.cc mv -f .deps/coot-glue-gtk2.Tpo .deps/coot-glue-gtk2.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 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-I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT drag-and-drop.o -MD -MP -MF .deps/drag-and-drop.Tpo -c -o drag-and-drop.o drag-and-drop.cc mv -f .deps/coot_pythonmodule.Tpo .deps/coot_pythonmodule.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT geometry-graphs.o -MD -MP -MF .deps/geometry-graphs.Tpo -c -o geometry-graphs.o geometry-graphs.cc In file included from coot-hydrogens.cc:3: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ mv -f .deps/coot-nomenclature.Tpo .deps/coot-nomenclature.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT get-residue.o -MD -MP -MF .deps/get-residue.Tpo -c -o get-residue.o get-residue.cc coot_wrap_guile_gtk2.cc:1479:44: warning: conversion from string literal to 'char *' is deprecated [-Wdeprecated-writable-strings] static char *gswig_const_COOT_PYTHON_DIR = "COOT_PYTHON_DIR"; ^ mv -f .deps/command-line.Tpo .deps/command-line.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT flev.o -MD -MP -MF .deps/flev.Tpo -c -o flev.o flev.cc mv -f .deps/cmtz-interface.Tpo .deps/cmtz-interface.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT generic-objects.o -MD -MP -MF .deps/generic-objects.Tpo -c -o generic-objects.o generic-objects.cc mv -f .deps/drag-and-drop.Tpo .deps/drag-and-drop.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT globjects.o -MD -MP -MF .deps/globjects.Tpo -c -o globjects.o globjects.cc In file included from flev.cc:32: In file included from ../lbg/lbg.hh:37: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ mv -f .deps/c-interface.Tpo .deps/c-interface.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info.o -MD -MP -MF .deps/graphics-info.Tpo -c -o graphics-info.o graphics-info.cc mv -f .deps/geometry-graphs.Tpo .deps/geometry-graphs.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-defines.o -MD -MP -MF .deps/graphics-info-defines.Tpo -c -o graphics-info-defines.o graphics-info-defines.cc mv -f .deps/get-residue.Tpo .deps/get-residue.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-graphs.o -MD -MP -MF .deps/graphics-info-graphs.Tpo -c -o graphics-info-graphs.o graphics-info-graphs.cc 3 warnings generated. mv -f .deps/coot-hydrogens.Tpo .deps/coot-hydrogens.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-gui.o -MD -MP -MF .deps/graphics-info-gui.Tpo -c -o graphics-info-gui.o graphics-info-gui.cc graphics-info.cc:1868:23: warning: 'gluNewQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] GLUquadric* quad = gluNewQuadric(); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:267:20: note: 'gluNewQuadric' declared here extern GLUquadric* gluNewQuadric (void) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1869:4: warning: 'gluCylinder' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluCylinder(quad, base, top, height, slices, stacks); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:251:13: note: 'gluCylinder' declared here extern void gluCylinder (GLUquadric* quad, GLdouble base, GLdouble top, GLdouble height, GLint slices, GLint stacks) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1873:7: warning: 'gluDisk' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDisk(quad, 0, base, slices, 2); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:255:13: note: 'gluDisk' declared here extern void gluDisk (GLUquadric* quad, GLdouble inner, GLdouble outer, GLint slices, GLint loops) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1876:7: warning: 'gluDisk' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDisk(quad, 0, base, slices, 2); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:255:13: note: 'gluDisk' declared here extern void gluDisk (GLUquadric* quad, GLdouble inner, GLdouble outer, GLint slices, GLint loops) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1880:33: warning: 'gluNewQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] GLUquadric* sphere_quad = gluNewQuadric(); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:267:20: note: 'gluNewQuadric' declared here extern GLUquadric* gluNewQuadric (void) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1883:7: warning: 'gluSphere' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluSphere(sphere_quad, top, sphere_slices, sphere_stacks); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:288:13: note: 'gluSphere' declared here extern void gluSphere (GLUquadric* quad, GLdouble radius, GLint slices, GLint stacks) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1885:7: warning: 'gluSphere' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluSphere(sphere_quad, top, sphere_slices, sphere_stacks); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:288:13: note: 'gluSphere' declared here extern void gluSphere (GLUquadric* quad, GLdouble radius, GLint slices, GLint stacks) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1886:7: warning: 'gluDeleteQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDeleteQuadric(sphere_quad); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:253:13: note: 'gluDeleteQuadric' declared here extern void gluDeleteQuadric (GLUquadric* quad) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1889:4: warning: 'gluDeleteQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDeleteQuadric(quad); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:253:13: note: 'gluDeleteQuadric' declared here extern void gluDeleteQuadric (GLUquadric* quad) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1942:25: warning: 'gluNewQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] GLUquadric* quad_1 = gluNewQuadric(); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:267:20: note: 'gluNewQuadric' declared here extern GLUquadric* gluNewQuadric (void) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1943:25: warning: 'gluNewQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] GLUquadric* quad_2 = gluNewQuadric(); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:267:20: note: 'gluNewQuadric' declared here extern GLUquadric* gluNewQuadric (void) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1944:25: warning: 'gluNewQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] GLUquadric* quad_3 = gluNewQuadric(); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:267:20: note: 'gluNewQuadric' declared here extern GLUquadric* gluNewQuadric (void) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1946:4: warning: 'gluCylinder' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluCylinder(quad_1, base, top, height, slices, stacks); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:251:13: note: 'gluCylinder' declared here extern void gluCylinder (GLUquadric* quad, GLdouble base, GLdouble top, GLdouble height, GLint slices, GLint stacks) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1948:4: warning: 'gluCylinder' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluCylinder(quad_2, 2*base, 0, fraction_head_size * height, slices, stacks); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:251:13: note: 'gluCylinder' declared here extern void gluCylinder (GLUquadric* quad, GLdouble base, GLdouble top, GLdouble height, GLint slices, GLint stacks) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1951:4: warning: 'gluDisk' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDisk(quad_3, 0, base, slices, 2); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:255:13: note: 'gluDisk' declared here extern void gluDisk (GLUquadric* quad, GLdouble inner, GLdouble outer, GLint slices, GLint loops) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1954:4: warning: 'gluDeleteQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDeleteQuadric(quad_1); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:253:13: note: 'gluDeleteQuadric' declared here extern void gluDeleteQuadric (GLUquadric* quad) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1955:4: warning: 'gluDeleteQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDeleteQuadric(quad_2); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:253:13: note: 'gluDeleteQuadric' declared here extern void gluDeleteQuadric (GLUquadric* quad) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:1956:4: warning: 'gluDeleteQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDeleteQuadric(quad_3); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:253:13: note: 'gluDeleteQuadric' declared here extern void gluDeleteQuadric (GLUquadric* quad) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:4370:31: warning: 'gluNewQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] GLUquadric* sphere_quad = gluNewQuadric(); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:267:20: note: 'gluNewQuadric' declared here extern GLUquadric* gluNewQuadric (void) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:4375:5: warning: 'gluSphere' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluSphere(sphere_quad, radius, sphere_slices, sphere_stacks); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:288:13: note: 'gluSphere' declared here extern void gluSphere (GLUquadric* quad, GLdouble radius, GLint slices, GLint stacks) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:4376:5: warning: 'gluDeleteQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDeleteQuadric(sphere_quad); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:253:13: note: 'gluDeleteQuadric' declared here extern void gluDeleteQuadric (GLUquadric* quad) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:4405:31: warning: 'gluNewQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] GLUquadric* sphere_quad = gluNewQuadric(); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:267:20: note: 'gluNewQuadric' declared here extern GLUquadric* gluNewQuadric (void) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:4410:5: warning: 'gluSphere' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluSphere(sphere_quad, ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:288:13: note: 'gluSphere' declared here extern void gluSphere (GLUquadric* quad, GLdouble radius, GLint slices, GLint stacks) OPENGL_DEPRECATED(10_0, 10_9); ^ graphics-info.cc:4413:5: warning: 'gluDeleteQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDeleteQuadric(sphere_quad); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:253:13: note: 'gluDeleteQuadric' declared here extern void gluDeleteQuadric (GLUquadric* quad) OPENGL_DEPRECATED(10_0, 10_9); ^ mv -f .deps/generic-objects.Tpo .deps/generic-objects.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-modelling.o -MD -MP -MF .deps/graphics-info-modelling.Tpo -c -o graphics-info-modelling.o graphics-info-modelling.cc mv -f .deps/globjects.Tpo .deps/globjects.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-navigation.o -MD -MP -MF .deps/graphics-info-navigation.Tpo -c -o graphics-info-navigation.o graphics-info-navigation.cc mv -f .deps/graphics-info-defines.Tpo .deps/graphics-info-defines.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-navigation-gtk1.o -MD -MP -MF .deps/graphics-info-navigation-gtk1.Tpo -c -o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk1.cc 1 warning generated. mv -f .deps/graphics-info-navigation-gtk1.Tpo .deps/graphics-info-navigation-gtk1.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-navigation-gtk2.o -MD -MP -MF .deps/graphics-info-navigation-gtk2.Tpo -c -o graphics-info-navigation-gtk2.o graphics-info-navigation-gtk2.cc mv -f .deps/coot_wrap_guile_gtk2.Tpo .deps/coot_wrap_guile_gtk2.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE 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-I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-network.o -MD -MP -MF .deps/graphics-info-network.Tpo -c -o graphics-info-network.o graphics-info-network.cc mv -f .deps/graphics-info-gui.Tpo .deps/graphics-info-gui.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-mutate.o -MD -MP -MF .deps/graphics-info-mutate.Tpo -c -o graphics-info-mutate.o graphics-info-mutate.cc 3 warnings generated. mv -f .deps/flev.Tpo .deps/flev.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-lsq.o -MD -MP -MF .deps/graphics-info-lsq.Tpo -c -o graphics-info-lsq.o graphics-info-lsq.cc 24 warnings generated. mv -f .deps/graphics-info.Tpo .deps/graphics-info.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK 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-DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT graphics-info-scripting.o -MD -MP -MF .deps/graphics-info-scripting.Tpo -c -o graphics-info-scripting.o graphics-info-scripting.cc mv -f .deps/graphics-info-lsq.Tpo .deps/graphics-info-lsq.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 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-I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT gl-matrix.o -MD -MP -MF .deps/gl-matrix.Tpo -c -o gl-matrix.o gl-matrix.cc mv -f .deps/graphics-info-residues.Tpo .deps/graphics-info-residues.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT gtk-manual.o -MD -MP -MF .deps/gtk-manual.Tpo -c -o gtk-manual.o gtk-manual.cc mv -f .deps/graphics-info-refmac.Tpo .deps/graphics-info-refmac.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT gtk-widget-conversion-utils.o -MD -MP -MF .deps/gtk-widget-conversion-utils.Tpo -c -o gtk-widget-conversion-utils.o gtk-widget-conversion-utils.cc mv -f .deps/gl-matrix.Tpo .deps/gl-matrix.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT gtk2-interface.o -MD -MP -MF .deps/gtk2-interface.Tpo -c -o gtk2-interface.o gtk2-interface.c In file included from graphics-ligand-view.cc:31: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ mv -f .deps/graphics-info-scripting.Tpo .deps/graphics-info-scripting.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT interface.o -MD -MP -MF .deps/interface.Tpo -c -o interface.o interface.c mv -f .deps/graphics-info-render.Tpo .deps/graphics-info-render.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT lbg-callbacks-outer.o -MD -MP -MF .deps/lbg-callbacks-outer.Tpo -c -o lbg-callbacks-outer.o lbg-callbacks-outer.cc mv -f .deps/gtk-widget-conversion-utils.Tpo .deps/gtk-widget-conversion-utils.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT lbg-interface.o -MD -MP -MF .deps/lbg-interface.Tpo -c -o lbg-interface.o lbg-interface.cc mv -f .deps/interface.Tpo .deps/interface.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info.o -MD -MP -MF .deps/molecule-class-info.Tpo -c -o molecule-class-info.o molecule-class-info.cc mv -f .deps/gtk-manual.Tpo .deps/gtk-manual.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-maps.o -MD -MP -MF .deps/molecule-class-info-maps.Tpo -c -o molecule-class-info-maps.o molecule-class-info-maps.cc In file included from lbg-interface.cc:32: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ In file included from lbg-callbacks-outer.cc:2: In file included from ../lbg/lbg-callbacks.cc:31: In file included from ../lbg/lbg.hh:37: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ mv -f .deps/graphics-info-superpose.Tpo .deps/graphics-info-superpose.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-maps-2.o -MD -MP -MF .deps/molecule-class-info-maps-2.Tpo -c -o molecule-class-info-maps-2.o molecule-class-info-maps-2.cc molecule-class-info-maps-2.cc:22:42: warning: variable 'centre_moved' is uninitialized when used within its own initialization [-Wuninitialized] clipper::Coord_orth centre_moved = centre_moved - clipper::Coord_orth(0.1, 0.1, 0.1); ~~~~~~~~~~~~ ^~~~~~~~~~~~ mv -f .deps/gtk2-interface.Tpo .deps/gtk2-interface.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-kdc.o -MD -MP -MF .deps/molecule-class-info-kdc.Tpo -c -o molecule-class-info-kdc.o molecule-class-info-kdc.cc mv -f .deps/graphics-info-state.Tpo .deps/graphics-info-state.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-dots.o -MD -MP -MF .deps/molecule-class-info-dots.Tpo -c -o molecule-class-info-dots.o molecule-class-info-dots.cc 3 warnings generated. mv -f .deps/graphics-ligand-view.Tpo .deps/graphics-ligand-view.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-other.o -MD -MP -MF .deps/molecule-class-info-other.Tpo -c -o molecule-class-info-other.o molecule-class-info-other.cc 1 warning generated. mv -f .deps/molecule-class-info-maps-2.Tpo .deps/molecule-class-info-maps-2.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-build.o -MD -MP -MF .deps/molecule-class-info-build.Tpo -c -o molecule-class-info-build.o molecule-class-info-build.cc mv -f .deps/molecule-class-info-dots.Tpo .deps/molecule-class-info-dots.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-mutate.o -MD -MP -MF .deps/molecule-class-info-mutate.Tpo -c -o molecule-class-info-mutate.o molecule-class-info-mutate.cc 3 warnings generated. mv -f .deps/lbg-callbacks-outer.Tpo .deps/lbg-callbacks-outer.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-residues.o -MD -MP -MF .deps/molecule-class-info-residues.Tpo -c -o molecule-class-info-residues.o molecule-class-info-residues.cc mv -f .deps/molecule-class-info-kdc.Tpo .deps/molecule-class-info-kdc.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-refine.o -MD -MP -MF .deps/molecule-class-info-refine.Tpo -c -o molecule-class-info-refine.o molecule-class-info-refine.cc 3 warnings generated. mv -f .deps/lbg-interface.Tpo .deps/lbg-interface.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-kk.o -MD -MP -MF .deps/molecule-class-info-kk.Tpo -c -o molecule-class-info-kk.o molecule-class-info-kk.cc molecule-class-info-residues.cc:875:28: warning: 'gluNewQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] GLUquadric* quad = gluNewQuadric(); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:267:20: note: 'gluNewQuadric' declared here extern GLUquadric* gluNewQuadric (void) OPENGL_DEPRECATED(10_0, 10_9); ^ molecule-class-info-residues.cc:876:9: warning: 'gluCylinder' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluCylinder(quad, base, top, height, slices, stacks); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:251:13: note: 'gluCylinder' declared here extern void gluCylinder (GLUquadric* quad, GLdouble base, GLdouble top, GLdouble height, GLint slices, GLint stacks) OPENGL_DEPRECATED(10_0, 10_9); ^ molecule-class-info-residues.cc:877:9: warning: 'gluDeleteQuadric' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] gluDeleteQuadric(quad); ^ /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:253:13: note: 'gluDeleteQuadric' declared here extern void gluDeleteQuadric (GLUquadric* quad) OPENGL_DEPRECATED(10_0, 10_9); ^ mv -f .deps/molecule-class-info-build.Tpo .deps/molecule-class-info-build.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-surface.o -MD -MP -MF .deps/molecule-class-info-surface.Tpo -c -o molecule-class-info-surface.o molecule-class-info-surface.cc mv -f .deps/molecule-class-info.Tpo .deps/molecule-class-info.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-ncs.o -MD -MP -MF .deps/molecule-class-info-ncs.Tpo -c -o molecule-class-info-ncs.o molecule-class-info-ncs.cc mv -f .deps/molecule-class-info-maps.Tpo .deps/molecule-class-info-maps.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT molecule-class-info-widget-work.o -MD -MP -MF .deps/molecule-class-info-widget-work.Tpo -c -o molecule-class-info-widget-work.o molecule-class-info-widget-work.cc mv -f .deps/molecule-class-info-kk.Tpo .deps/molecule-class-info-kk.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT nsv.o -MD -MP -MF .deps/nsv.Tpo -c -o nsv.o nsv.cc mv -f .deps/molecule-class-info-mutate.Tpo .deps/molecule-class-info-mutate.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT pick.o -MD -MP -MF .deps/pick.Tpo -c -o pick.o pick.cc mv -f .deps/molecule-class-info-surface.Tpo .deps/molecule-class-info-surface.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT probe-clash-score.o -MD -MP -MF .deps/probe-clash-score.Tpo -c -o probe-clash-score.o probe-clash-score.cc 3 warnings generated. mv -f .deps/molecule-class-info-residues.Tpo .deps/molecule-class-info-residues.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT protein_db-interface.o -MD -MP -MF .deps/protein_db-interface.Tpo -c -o protein_db-interface.o protein_db-interface.cc mv -f .deps/nsv.Tpo .deps/nsv.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT read-phs.o -MD -MP -MF .deps/read-phs.Tpo -c -o read-phs.o read-phs.c mv -f .deps/molecule-class-info-refine.Tpo .deps/molecule-class-info-refine.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT read-cif.o -MD -MP -MF .deps/read-cif.Tpo -c -o read-cif.o read-cif.c mv -f .deps/molecule-class-info-widget-work.Tpo .deps/molecule-class-info-widget-work.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT rama_mousey.o -MD -MP -MF .deps/rama_mousey.Tpo -c -o rama_mousey.o rama_mousey.cc mv -f .deps/probe-clash-score.Tpo .deps/probe-clash-score.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT rama_plot.o -MD -MP -MF .deps/rama_plot.Tpo -c -o rama_plot.o rama_plot.cc mv -f .deps/read-cif.Tpo .deps/read-cif.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT restraints-editor.o -MD -MP -MF .deps/restraints-editor.Tpo -c -o restraints-editor.o restraints-editor.cc mv -f .deps/read-phs.Tpo .deps/read-phs.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT sdf-interface.o -MD -MP -MF .deps/sdf-interface.Tpo -c -o sdf-interface.o sdf-interface.cc mv -f .deps/protein_db-interface.Tpo .deps/protein_db-interface.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT support.o -MD -MP -MF .deps/support.Tpo -c -o support.o support.c mv -f .deps/rama_mousey.Tpo .deps/rama_mousey.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT support-gtk2-extras.o -MD -MP -MF .deps/support-gtk2-extras.Tpo -c -o support-gtk2-extras.o support-gtk2-extras.c mv -f .deps/pick.Tpo .deps/pick.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT testing.o -MD -MP -MF .deps/testing.Tpo -c -o testing.o testing.cc mv -f .deps/support-gtk2-extras.Tpo .deps/support-gtk2-extras.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT testing-2.o -MD -MP -MF .deps/testing-2.Tpo -c -o testing-2.o testing-2.cc mv -f .deps/support.Tpo .deps/support.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT trackball.o -MD -MP -MF .deps/trackball.Tpo -c -o trackball.o trackball.c In file included from testing.cc:26: In file included from ../lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ mv -f .deps/trackball.Tpo .deps/trackball.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT sequence-view.o -MD -MP -MF .deps/sequence-view.Tpo -c -o sequence-view.o sequence-view.cc mv -f .deps/molecule-class-info-other.Tpo .deps/molecule-class-info-other.Po gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -g -O2 -MT seq-view-interface.o -MD -MP -MF .deps/seq-view-interface.Tpo -c -o seq-view-interface.o seq-view-interface.c mv -f .deps/rama_plot.Tpo .deps/rama_plot.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT user-mods.o -MD -MP -MF .deps/user-mods.Tpo -c -o user-mods.o user-mods.cc mv -f .deps/molecule-class-info-ncs.Tpo .deps/molecule-class-info-ncs.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT xmap-utils.o -MD -MP -MF .deps/xmap-utils.Tpo -c -o xmap-utils.o xmap-utils.cc In file included from sdf-interface.cc:37: In file included from ./sdf-internal.hh:2: In file included from ../lidia-core/rdkit-interface.hh:24: In file included from /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/use-rdkit.hh:16: In file included from /sw/include/rdkit/GraphMol/RDKitBase.h:22: In file included from /sw/include/rdkit/GraphMol/Atom.h:23: In file included from /sw/include/rdkit/Query/QueryObjects.h:19: In file included from /sw/include/rdkit/Query/Query.h:19: In file included from /sw/include/boost/smart_ptr.hpp:21: In file included from /sw/include/boost/shared_ptr.hpp:17: /sw/include/boost/smart_ptr/shared_ptr.hpp:491:41: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr( std::unique_ptr< Y, D > && r ): px( r.get() ), pn() ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:556:51: warning: rvalue references are a C++11 extension [-Wc++11-extensions] shared_ptr & operator=( std::unique_ptr && r ) ^ /sw/include/boost/smart_ptr/shared_ptr.hpp:558:55: warning: rvalue references are a C++11 extension [-Wc++11-extensions] this_type( static_cast< std::unique_ptr && >( r ) ).swap(*this); ^ mv -f .deps/seq-view-interface.Tpo .deps/seq-view-interface.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT coot_wrap_python_gtk2.o -MD -MP -MF .deps/coot_wrap_python_gtk2.Tpo -c -o coot_wrap_python_gtk2.o coot_wrap_python_gtk2.cc mv -f .deps/xmap-utils.Tpo .deps/xmap-utils.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT density-score-by-residue-src.o -MD -MP -MF .deps/density-score-by-residue-src.Tpo -c -o density-score-by-residue-src.o density-score-by-residue-src.cc mv -f .deps/user-mods.Tpo .deps/user-mods.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT fix-nomenclature.o -MD -MP -MF .deps/fix-nomenclature.Tpo -c -o fix-nomenclature.o fix-nomenclature.cc mv -f .deps/testing-2.Tpo .deps/testing-2.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT align.o -MD -MP -MF .deps/align.Tpo -c -o align.o align.cc mv -f .deps/density-score-by-residue-src.Tpo .deps/density-score-by-residue-src.Po g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I.. -I/sw/include/rdkit -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -I/sw/include -D_THREAD_SAFE -DHAVE_GNOME_CANVAS -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/libgnomecanvas-2.0 -I/sw/include/libart-2.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -DCOOT_USE_GTK2_INTERFACE -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtkglext-1.0 -I/sw/lib/gtkglext-1.0/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/pango-1.0 -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/usr/X11R6/include -I/usr/X11R6/include -I/opt/X11/include -I/usr/include/libglade-2.0 -DHAVE_GOOCANVAS -I/sw/include/goocanvas-1.0 -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include -I/sw/include/gtk-2.0 -I/sw/lib/gtk-2.0/include -I/sw/include/gtk-2.0 -I/sw/include/pango-1.0 -I/sw/include/atk-1.0 -I/sw/include/cairo -I/sw/include/pango-1.0 -I/sw/include/freetype2 -I/sw/include -I/opt/X11/include -I/sw/include -DHAVE_SSMLIB -I/sw/include -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/sw/include -I/sw/include -I/sw/include/glib-2.0 -I/sw/lib/glib-2.0/include -I/sw/include/pygtk-2.0 -I/sw/include -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils -I/sw/include/rdkit -I/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core -I/sw/include/libglade-2.0/glade -I/sw/include/libglade-2.0 -I/sw/include/python2.7 -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -I/sw/include/clipper -I/sw/include -I/usr/X11R6/include -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -MT test-chol.o -MD -MP -MF .deps/test-chol.Tpo -c -o test-chol.o test-chol.cc mv -f .deps/restraints-editor.Tpo .deps/restraints-editor.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o density-score-by-residue-real density-score-by-residue-src.o ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-shelx.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm -L/sw/lib -lgsl -lgslcblas mv -f .deps/align.Tpo .deps/align.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o test-coot-align align.o coot-align.o ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-shelx.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm mv -f .deps/fix-nomenclature.Tpo .deps/fix-nomenclature.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o fix-nomenclature-errors fix-nomenclature.o coot-nomenclature.o ../ligand/libcoot-ligand.la ../db-main/libcoot-db-main.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-shelx.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lgsl -lgslcblas -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm mv -f .deps/sequence-view.Tpo .deps/sequence-view.Po mv -f .deps/test-chol.Tpo .deps/test-chol.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o test-cholesky test-chol.o gl-matrix.o ../coords/libcoot-coords.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-shelx.la ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -lmmdb -lm -L/sw/lib -lgsl -lgslcblas testing.cc:1033:10: warning: logical not is only applied to the left hand side of this comparison [-Wlogical-not-parentheses] if (!chi_angles.size() > 0) { ^ ~ testing.cc:1033:10: note: add parentheses after the '!' to evaluate the comparison first if (!chi_angles.size() > 0) { ^ ( ) testing.cc:1033:10: note: add parentheses around left hand side expression to silence this warning if (!chi_angles.size() > 0) { ^ ( ) libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -DPACKAGE_LOCALE_DIR=\"/sw/share/coot/locale\" -DDATADIR=\"/sw/share\" -DCOOT_SYS_BUILD_TYPE=\"Darwin-MacOSX-10.9.4-x86_64-python-gtk2\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/test-coot-align align.o coot-align.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../utils/.libs/libcoot-utils.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -DPACKAGE_LOCALE_DIR=\"/sw/share/coot/locale\" -DDATADIR=\"/sw/share\" -DCOOT_SYS_BUILD_TYPE=\"Darwin-MacOSX-10.9.4-x86_64-python-gtk2\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/test-cholesky test-chol.o gl-matrix.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../coords/.libs/libcoot-coords.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../geometry/.libs/libcoot-geometry.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -DPACKAGE_LOCALE_DIR=\"/sw/share/coot/locale\" -DDATADIR=\"/sw/share\" -DCOOT_SYS_BUILD_TYPE=\"Darwin-MacOSX-10.9.4-x86_64-python-gtk2\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/density-score-by-residue-real density-score-by-residue-src.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../coot-utils/.libs/libcoot-map-utils.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib ../compat/.libs/libcoot-compat.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib 3 warnings generated. mv -f .deps/sdf-interface.Tpo .deps/sdf-interface.Po libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -DPACKAGE_LOCALE_DIR=\"/sw/share/coot/locale\" -DDATADIR=\"/sw/share\" -DCOOT_SYS_BUILD_TYPE=\"Darwin-MacOSX-10.9.4-x86_64-python-gtk2\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/fix-nomenclature-errors fix-nomenclature.o coot-nomenclature.o -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../ligand/.libs/libcoot-ligand.dylib -L/sw/lib/rdkit /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ideal/.libs/libcoot-ideal.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/db-main/.libs/libcoot-db-main.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils/.libs/libccp4mg-utils.dylib ../db-main/.libs/libcoot-db-main.dylib ../ideal/.libs/libcoot-ideal.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-utils.dylib ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../ccp4mg-utils/.libs/libccp4mg-utils.dylib /sw/lib/libpng16.dylib ../coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-map-utils.dylib ../coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../utils/.libs/libcoot-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libmmdb.dylib -lm 4 warnings generated. mv -f .deps/testing.Tpo .deps/testing.Po mv -f .deps/coot_wrap_python_gtk2.Tpo .deps/coot_wrap_python_gtk2.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/sw/share/coot"' -DPACKAGE_LOCALE_DIR='"/sw/share/coot/locale"' -DDATADIR='"/sw/share"' -DCOOT_SYS_BUILD_TYPE='"Darwin-MacOSX-10.9.4-x86_64-python-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -Wl,-dylib_file,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -L/sw/lib -L/usr/lib -flat_namespace -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries -o coot-real main.o svn-revision.o c-inner-main.o c-interface-analysis.o c-interface-build.o c-interface-build-gui.o c-interface-database.o c-interface-gui.o c-interface-gtk2.o c-interface-info.o c-interface-kk.o c-interface-ligands.o c-interface-ligands-gui.o c-interface-maps.o c-interface-mmdb.o c-interface-mogul.o c-interface-mogul-scripting.o c-interface-mutate.o c-interface-ncs.o c-interface-network.o c-interface-nucleotides.o c-interface-python.o c-interface-pisa.o c-interface-pisa-gui.o c-interface-preferences.o c-interface-refine.o c-interface-residues.o c-interface-scm.o c-interface-sequence.o c-interface-sfs.o c-interface-superpose.o c-interface-validate.o c-interface-view.o c-interface-widgets.o c-interface-waters.o c-interface-waters-gui.o c-interface.o c-interface-test.o callbacks.o cmtz-interface.o command-line.o coot-colour.o coot-align.o coot-nomenclature.o coot-glue.o coot-glue-gtk2.o coot-glue-gtk2-python.o coot-hydrogens.o coot_pythonmodule.o coot_wrap_guile_gtk2.o drag-and-drop.o geometry-graphs.o get-residue.o flev.o generic-objects.o globjects.o graphics-info.o graphics-info-defines.o graphics-info-graphs.o graphics-info-gui.o graphics-info-modelling.o graphics-info-navigation.o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk2.o graphics-info-preferences.o graphics-info-network.o graphics-info-mutate.o graphics-info-lsq.o graphics-info-pick.o graphics-info-refmac.o graphics-info-render.o graphics-info-residues.o graphics-info-scripting.o graphics-info-state.o graphics-info-superpose.o graphics-ligand-view.o gl-matrix.o gtk-manual.o gtk-widget-conversion-utils.o gtk2-interface.o interface.o lbg-callbacks-outer.o lbg-interface.o molecule-class-info.o molecule-class-info-maps.o molecule-class-info-maps-2.o molecule-class-info-kdc.o molecule-class-info-dots.o molecule-class-info-other.o molecule-class-info-build.o molecule-class-info-mutate.o molecule-class-info-residues.o molecule-class-info-refine.o molecule-class-info-kk.o molecule-class-info-surface.o molecule-class-info-ncs.o molecule-class-info-widget-work.o nsv.o pick.o probe-clash-score.o protein_db-interface.o read-phs.o read-cif.o rama_mousey.o rama_plot.o restraints-editor.o sdf-interface.o support.o support-gtk2-extras.o testing.o testing-2.o trackball.o sequence-view.o seq-view-interface.o user-mods.o xmap-utils.o coot_wrap_python_gtk2.o ../lbg/libcoot-lidia.la ../ligand/libcoot-ligand.la ../lidia-core/libcoot-lidia-core.la ../goograph/libcoot-goograph.la ../libgtkgraph/libcoot-gtkgraph.la ../density-contour/libcoot-isosurface.la ../build/libcoot-cabuild.la ../skeleton/libcoot-skeleton.la ../angles/libcoot-AngleInfo.la ../db-main/libcoot-db-main.la ../high-res/libcoot-high-res.la ../ideal/libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-surface/libcoot-surface.la ../surface/libccp4mg-surface.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-shelx.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../protein_db/libcoot-protein-db.la ../cootilus/libcootilus.la ../cootaneer/libcootaneer.la ../compat/libcoot-compat.la /sw/lib/libguilegtk-2.0.la -I/sw/include -D_THREAD_SAFE -L/sw/lib -lguile -lltdl -L/sw/lib -lgmp -lm -lltdl -L/sw/lib -lclipper-ccp4 -lclipper-cif -lclipper-phs -lclipper-contrib -lclipper-minimol -lclipper-cns -lclipper-mmdb -lclipper-core -lccp4c -lmmdb -lm -lsrfftw -lsfftw -lz -lm -lpthread -L/sw/lib -lssm -lmmdb -lm -L/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/config -ldl -framework CoreFoundation -lpython2.7 -ldl -lutil -L/sw/lib -L/sw/lib -L/sw/lib -L/usr/X11R6/lib -L/usr/X11R6/lib -lgtkglext-x11-1.0 -lgdkglext-x11-1.0 -lGLU -lGL -lXmu -lXt -lSM -lICE -lgdk-x11-2.0 -lpangox-1.0 -lX11 -lgmodule-2.0 -lgtk-x11-2.0 -lgdk-x11-2.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lfreetype -lfontconfig -L/sw/lib -lglut -L/usr/X11R6/lib -lXmu -L/sw/lib -lgnomecanvas-2 -lart_lgpl_2 -lgtk-x11-2.0 -lgdk-x11-2.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lfreetype -lfontconfig -L/sw/lib -lgsl -lgslcblas -L/sw/lib -lcurl -lglade-2.0 "-L/sw/lib/rdkit -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python " -L/sw/lib -lgoocanvas -L/sw/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lgmodule-2.0 -lglib-2.0 -lfreetype -lfontconfig libtool: link: g++ -DPKGDATADIR=\"/sw/share/coot\" -DPACKAGE_LOCALE_DIR=\"/sw/share/coot/locale\" -DDATADIR=\"/sw/share\" -DCOOT_SYS_BUILD_TYPE=\"Darwin-MacOSX-10.9.4-x86_64-python-gtk2\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/sw/include -I/sw/include -D_THREAD_SAFE -DUSE_PYTHON -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O2 -Wl,-dylib_file -Wl,/sw/lib/libboost_python.dylib:/sw/lib/python2.7/site-packages/libboost_python-1_53.dylib:/sw/lib/python2.7/config/libpython2.7.dylib:/sw/lib/libsfftw.2.0.7.dylib:/sw/lib/libsrfftw.2.0.7.dylib:/sw/lib/pango-ft219/lib/libpango-1.0.dylib:/sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib:/sw/lib/pango-ft219/lib/libpangox-1.0.dylib:/sw/lib/pango-ft219/lib/libpangoxft-1.0.dylib -flat_namespace -o .libs/coot-real main.o svn-revision.o c-inner-main.o c-interface-analysis.o c-interface-build.o c-interface-build-gui.o c-interface-database.o c-interface-gui.o c-interface-gtk2.o c-interface-info.o c-interface-kk.o c-interface-ligands.o c-interface-ligands-gui.o c-interface-maps.o c-interface-mmdb.o c-interface-mogul.o c-interface-mogul-scripting.o c-interface-mutate.o c-interface-ncs.o c-interface-network.o c-interface-nucleotides.o c-interface-python.o c-interface-pisa.o c-interface-pisa-gui.o c-interface-preferences.o c-interface-refine.o c-interface-residues.o c-interface-scm.o c-interface-sequence.o c-interface-sfs.o c-interface-superpose.o c-interface-validate.o c-interface-view.o c-interface-widgets.o c-interface-waters.o c-interface-waters-gui.o c-interface.o c-interface-test.o callbacks.o cmtz-interface.o command-line.o coot-colour.o coot-align.o coot-nomenclature.o coot-glue.o coot-glue-gtk2.o coot-glue-gtk2-python.o coot-hydrogens.o coot_pythonmodule.o coot_wrap_guile_gtk2.o drag-and-drop.o geometry-graphs.o get-residue.o flev.o generic-objects.o globjects.o graphics-info.o graphics-info-defines.o graphics-info-graphs.o graphics-info-gui.o graphics-info-modelling.o graphics-info-navigation.o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk2.o graphics-info-preferences.o graphics-info-network.o graphics-info-mutate.o graphics-info-lsq.o graphics-info-pick.o graphics-info-refmac.o graphics-info-render.o graphics-info-residues.o graphics-info-scripting.o graphics-info-state.o graphics-info-superpose.o graphics-ligand-view.o gl-matrix.o gtk-manual.o gtk-widget-conversion-utils.o gtk2-interface.o interface.o lbg-callbacks-outer.o lbg-interface.o molecule-class-info.o molecule-class-info-maps.o molecule-class-info-maps-2.o molecule-class-info-kdc.o molecule-class-info-dots.o molecule-class-info-other.o molecule-class-info-build.o molecule-class-info-mutate.o molecule-class-info-residues.o molecule-class-info-refine.o molecule-class-info-kk.o molecule-class-info-surface.o molecule-class-info-ncs.o molecule-class-info-widget-work.o nsv.o pick.o probe-clash-score.o protein_db-interface.o read-phs.o read-cif.o rama_mousey.o rama_plot.o restraints-editor.o sdf-interface.o support.o support-gtk2-extras.o testing.o testing-2.o trackball.o sequence-view.o seq-view-interface.o user-mods.o xmap-utils.o coot_wrap_python_gtk2.o -I/sw/include -D_THREAD_SAFE -L/sw/lib -L/usr/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries ../lbg/.libs/libcoot-lidia.dylib -L/sw/lib/rdkit ../ligand/.libs/libcoot-ligand.dylib ../lidia-core/.libs/libcoot-lidia-core.dylib ../goograph/.libs/libcoot-goograph.dylib ../libgtkgraph/.libs/libcoot-gtkgraph.dylib ../density-contour/.libs/libcoot-isosurface.dylib ../build/.libs/libcoot-cabuild.dylib ../skeleton/.libs/libcoot-skeleton.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/angles/.libs/libcoot-AngleInfo.dylib ../angles/.libs/libcoot-AngleInfo.dylib ../db-main/.libs/libcoot-db-main.dylib ../high-res/.libs/libcoot-high-res.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ligand/.libs/libcoot-ligand.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ideal/.libs/libcoot-ideal.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/db-main/.libs/libcoot-db-main.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils/.libs/libccp4mg-utils.dylib ../ideal/.libs/libcoot-ideal.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-extras.dylib ../geometry/.libs/libcoot-geometry.dylib ../coords/.libs/libcoot-coords.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-shelx.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/.libs/libcoot-lidia-core.dylib ../coot-surface/.libs/libcoot-surface.dylib -L/usr/X11R6/lib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/surface/.libs/libccp4mg-surface.dylib ../surface/.libs/libccp4mg-surface.dylib ../ccp4mg-utils/.libs/libccp4mg-utils.dylib /sw/lib/libpng16.dylib ../coot-utils/.libs/libcoot-map-heavy.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-map-utils.dylib ../coot-utils/.libs/libcoot-map-utils.dylib ../coot-utils/.libs/libcoot-coord-extras.dylib ../coot-utils/.libs/libcoot-coord-utils.dylib ../coot-utils/.libs/libcoot-shelx.dylib ../utils/.libs/libcoot-utils.dylib ../mini-mol/.libs/libcoot-mini-mol.dylib ../analysis/.libs/libcoot-analysis.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/.libs/libcoot-coord-utils.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/.libs/libcoot-geometry.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/.libs/libcoot-mini-mol.dylib /sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/.libs/libcoot-utils.dylib ../protein_db/.libs/libcoot-protein-db.dylib ../cootilus/.libs/libcootilus.dylib ../cootaneer/.libs/libcootaneer.dylib ../compat/.libs/libcoot-compat.dylib /sw/lib/libguilegtk-2.0.dylib /sw/lib/libguile.dylib /sw/lib/gmp5/libgmp.dylib /sw/lib/libltdl.dylib /sw/lib/libclipper-ccp4.dylib /sw/lib/libclipper-cif.dylib /sw/lib/libclipper-phs.dylib /sw/lib/libclipper-contrib.dylib /sw/lib/libclipper-minimol.dylib /sw/lib/libclipper-cns.dylib /sw/lib/libclipper-mmdb.dylib /sw/lib/libclipper-core.dylib /sw/lib/libccp4c.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -lz -lpthread /sw/lib/libssm.dylib /sw/lib/libmmdb.dylib -lm -L/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/config -framework CoreFoundation -lpython2.7 -ldl -lutil /sw/lib/libgtkglext-x11-1.0.dylib /sw/lib/libgdkglext-x11-1.0.dylib -lGLU -lGL -lXt -lSM -lICE /sw/lib/pango-ft219/lib/libpangox-1.0.dylib -lX11 /sw/lib/libfreeglut.dylib -lXmu /sw/lib/libgnomecanvas-2.dylib /sw/lib/libart_lgpl_2.dylib /sw/lib/libgsl.dylib /sw/lib/libgslcblas.dylib /sw/lib/libcurl.dylib /sw/lib/libglade-2.0.dylib -lMolChemicalFeatures -lDescriptors -lSubgraphs -lPartialCharges -lForceFieldHelpers -lForceField -lSubstructMatch -lOptimizer -lDistGeomHelpers -lDistGeometry -lAlignment -lEigenSolvers -lDepictor -lFileParsers -lRDGeometryLib -lGraphMol -lSmilesParse -lDataStructs -lRDGeneral -lboost_python /sw/lib/libgoocanvas.dylib /sw/lib/libgtk-x11-2.0.dylib /sw/lib/libgdk-x11-2.0.dylib /sw/lib/libgdk_pixbuf-2.0.dylib /sw/lib/pango-ft219/lib/libpangocairo-1.0.dylib /sw/lib/libatk-1.0.dylib /sw/lib/libcairo.dylib /sw/lib/libgio-2.0.dylib /sw/lib/pango-ft219/lib/libpangoft2-1.0.dylib /sw/lib/pango-ft219/lib/libpango-1.0.dylib /sw/lib/libgobject-2.0.dylib /sw/lib/libgmodule-2.0.dylib /sw/lib/libglib-2.0.dylib /sw/lib/freetype219/lib/libfreetype.dylib /sw/lib/fontconfig2/lib/libfontconfig.dylib -pthread clang: warning: argument unused during compilation: '-pthread' Making all in data make[1]: Nothing to be done for `all'. Making all in rama-data make[1]: Nothing to be done for `all'. Making all in doc make[1]: Nothing to be done for `all'. Making all in rcrane make[1]: Nothing to be done for `all'. Making all in pixmaps make[1]: Nothing to be done for `all'. sed -e 's/#GTK2 //' ./cootrc.template > cootrc /bin/rm -rf /sw/build.build/root-coot-0.8-pre-revision-5067-1 /bin/mkdir -p /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw /bin/mkdir -p /sw/build.build/root-coot-0.8-pre-revision-5067-1/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-coot-0.8-pre-revision-5067-1 sudo -u fink-bld [ENV] sh -c /tmp/fink.ls2qa /tmp/fink.2DG6s # system-wide environment settings for zsh(1) if [ -x /usr/libexec/path_helper ]; then eval `/usr/libexec/path_helper -s` fi #!/bin/zsh -efv alias python=/sw/bin/python2.7 export PYTHON=/sw/bin/python2.7 export python=/sw/bin/python2.7 export GUILE=/sw/bin/guile-1.8 export PATH=$PWD/bin:/sw/bin:/sw/share/guile/1.8/scripts/binoverride:$PATH export SED=/usr/bin/sed export COOT_REFMAC_LIB_DIR=/sw/share/coot/lib # NUMPROC="$(sysctl -n hw.ncpu)" #NUMPROC="1" make -j $NUMPROC install prefix=/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw Making install in auxil Making install in catcheck make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. Making install in rama make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. Making install in sec-str make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. Making install in strand-analysis make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. Making install in vectors make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. Making install in scheme make[2]: Nothing to be done for `install-exec-am'. test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/scheme" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/scheme" /usr/bin/install -c -m 644 0-auto-rot.scm coot-utils.scm get-ebi.scm mutate.scm background-demo.scm demo-script.scm gtkin.scm my-readline.scm bit.scm extra-top-level.scm hello.scm raster3d.scm brute-lsqman.scm file-utils.scm junk.scm refmac.scm coot-gui.scm filter.scm libcheck.scm simple.scm coot.scm get-ebi.save.scm local-code.scm trivial.scm gap.scm remote-control.scm povray.scm coot-lsq.scm shelx.scm group-settings.scm fitting.scm americanisms.scm tips.scm tips-gui.scm generic-objects.scm cns2coot.scm extensions.scm ncs.scm create-server.scsh coot-crash-catcher.scm '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/scheme' /usr/bin/install -c -m 644 snarf-coot-docs.scm clear-backup.scm bones-reader.scm matrices.scm fascinating-things.scm shelx-extensions.scm parse-pisa-xml.scm check-for-updates.scm prodrg-import.scm get-recent-pdbe.scm json-reader.scm jligand.scm jligand-gui.scm redefine-functions.scm user-define-restraints.scm template-key-bindings.scm '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/scheme' Making install in python make[2]: Nothing to be done for `install-exec-am'. test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python" /usr/bin/install -c -m 644 coot_utils.py get_ebi.py mutate.py background_demo.py hello.py raster3d.py brute_lsqman.py refmac.py coot_gui.py filter.py libcheck.py coot_load_modules.py local_code.py gap.py remote_control.py povray.py coot_lsq.py shelx.py group_settings.py fitting.py americanisms.py tips.py tips_gui.py generic_objects.py cns2coot.py extensions.py ncs.py create_server.py python_coot_docs.py clear_backup.py bones_reader.py shelx_extensions.py parse_pisa_xml.py check_for_updates.py prodrg_import.py get_recent_pdbe.py jligand.py jligand_gui.py redefine_functions.py user_define_restraints.py '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python' /usr/bin/install -c -m 644 template_key_bindings.py coot_toolbuttons.py rcrane_loader.py pdbe_validation_data.py '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python' Making install in pdb-templates make[2]: Nothing to be done for `install-exec-am'. test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot" /usr/bin/install -c -m 644 ASN-NAG-via-NAG-ASN.pdb pyranose-pyranose-via-BETA1-4.pdb pyranose-pyranose-via-ALPHA1-2.pdb pyranose-pyranose-via-ALPHA1-3.pdb pyranose-pyranose-via-ALPHA1-6.pdb SIA-pyranose-via-ALPHA2-3.pdb link-by-torsion-to-pyranose-core-ALPHA1-2.tab link-by-torsion-to-pyranose-core-ALPHA1-3.tab link-by-torsion-to-pyranose-core-ALPHA1-6.tab link-by-torsion-to-pyranose-core-ALPHA2-3.tab link-by-torsion-to-pyranose-core-BETA1-4.tab link-by-torsion-to-pyranose-core-NAG-ASN.tab NAG-decorations.tab BMA-decorations.tab MAN-decorations.tab GLC-decorations.tab theor-helix-70.pdb '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot' Making install in macros make[2]: Nothing to be done for `install-exec-am'. make[2]: Nothing to be done for `install-data-am'. Making install in compat test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/compat" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/compat" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-compat.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 coot-getopt.h '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/compat' libtool: install: /usr/bin/install -c .libs/libcoot-compat.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-compat.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-compat.0.dylib libcoot-compat.dylib || { rm -f libcoot-compat.dylib && ln -s libcoot-compat.0.dylib libcoot-compat.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-compat.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-compat.la libtool: install: /usr/bin/install -c .libs/libcoot-compat.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-compat.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-compat.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-compat.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in utils test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/utils" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/utils" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-utils.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 coot-utils.hh coot-fasta.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/utils' libtool: install: /usr/bin/install -c .libs/libcoot-utils.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-utils.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-utils.0.dylib libcoot-utils.dylib || { rm -f libcoot-utils.dylib && ln -s libcoot-utils.0.dylib libcoot-utils.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-utils.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-utils.la libtool: install: /usr/bin/install -c .libs/libcoot-utils.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-utils.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-utils.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-utils.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in protein_db test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/protein_db" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/protein_db" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/protein_db" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/protein_db" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-protein-db.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 protein_db.h protein_db_utils.h rna_db.h '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/protein_db' /usr/bin/install -c -m 644 protein.db '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/protein_db' libtool: install: /usr/bin/install -c .libs/libcoot-protein-db.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-protein-db.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-protein-db.0.dylib libcoot-protein-db.dylib || { rm -f libcoot-protein-db.dylib && ln -s libcoot-protein-db.0.dylib libcoot-protein-db.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-protein-db.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-protein-db.la libtool: install: /usr/bin/install -c .libs/libcoot-protein-db.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-protein-db.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-protein-db.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-protein-db.a /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-protein-db.a(rna_db.o) has no symbols libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in mini-mol test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/mini-mol" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/mini-mol" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-mini-mol.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 mini-mol.hh mini-mol-utils.hh atom-quads.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/mini-mol' libtool: install: /usr/bin/install -c .libs/libcoot-mini-mol.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-mini-mol.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-mini-mol.0.dylib libcoot-mini-mol.dylib || { rm -f libcoot-mini-mol.dylib && ln -s libcoot-mini-mol.0.dylib libcoot-mini-mol.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-mini-mol.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-mini-mol.la libtool: install: /usr/bin/install -c .libs/libcoot-mini-mol.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-mini-mol.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-mini-mol.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-mini-mol.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in geometry test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/geometry" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/geometry" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-geometry.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 protein-geometry.hh read-sbase.hh lbg-graph.hh srs-interface.hh dict-mismatches.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/geometry' libtool: install: /usr/bin/install -c .libs/libcoot-geometry.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-geometry.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-geometry.0.dylib libcoot-geometry.dylib || { rm -f libcoot-geometry.dylib && ln -s libcoot-geometry.0.dylib libcoot-geometry.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-geometry.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-geometry.la libtool: install: /usr/bin/install -c .libs/libcoot-geometry.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-geometry.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-geometry.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-geometry.a libtool: install: warning: remember to run `libtool --finish /sw/lib' test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" /bin/sh ../libtool --mode=install /usr/bin/install -c compare-dictionaries '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin' libtool: install: warning: `./libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: /usr/bin/install -c .libs/compare-dictionaries /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/compare-dictionaries Making install in coot-utils test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/coot-utils" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/coot-utils" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-coord-utils.la libcoot-shelx.la libcoot-coord-extras.la libcoot-map-utils.la libcoot-map-heavy.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 peak-search.hh coot-trim.hh residue-and-atom-specs.hh coot-coord-utils.hh coot-map-utils.hh coot-coord-extras.hh coot-map-heavy.hh coot-lsq-types.h coot-shelx.hh coot-rama.hh xmap-stats.hh coot-h-bonds.hh lsq-improve.hh coot-hole.hh read-sm-cif.hh bonded-pairs.hh tree.hh helix-analysis.hh elastic.hh emma.hh glyco-torsions.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/coot-utils' libtool: install: /usr/bin/install -c .libs/libcoot-coord-utils.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coord-utils.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-coord-utils.0.dylib libcoot-coord-utils.dylib || { rm -f libcoot-coord-utils.dylib && ln -s libcoot-coord-utils.0.dylib libcoot-coord-utils.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-coord-utils.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coord-utils.la libtool: install: /usr/bin/install -c .libs/libcoot-shelx.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-shelx.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-shelx.0.dylib libcoot-shelx.dylib || { rm -f libcoot-shelx.dylib && ln -s libcoot-shelx.0.dylib libcoot-shelx.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-shelx.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-shelx.la libtool: install: /usr/bin/install -c .libs/libcoot-coord-extras.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coord-extras.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-coord-extras.0.dylib libcoot-coord-extras.dylib || { rm -f libcoot-coord-extras.dylib && ln -s libcoot-coord-extras.0.dylib libcoot-coord-extras.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-coord-extras.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coord-extras.la libtool: install: /usr/bin/install -c .libs/libcoot-map-utils.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-map-utils.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-map-utils.0.dylib libcoot-map-utils.dylib || { rm -f libcoot-map-utils.dylib && ln -s libcoot-map-utils.0.dylib libcoot-map-utils.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-map-utils.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-map-utils.la libtool: install: /usr/bin/install -c .libs/libcoot-map-heavy.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-map-heavy.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-map-heavy.0.dylib libcoot-map-heavy.dylib || { rm -f libcoot-map-heavy.dylib && ln -s libcoot-map-heavy.0.dylib libcoot-map-heavy.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-map-heavy.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-map-heavy.la libtool: install: /usr/bin/install -c .libs/libcoot-coord-utils.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coord-utils.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coord-utils.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coord-utils.a libtool: install: /usr/bin/install -c .libs/libcoot-shelx.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-shelx.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-shelx.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-shelx.a libtool: install: /usr/bin/install -c .libs/libcoot-coord-extras.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coord-extras.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coord-extras.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coord-extras.a libtool: install: /usr/bin/install -c .libs/libcoot-map-utils.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-map-utils.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-map-utils.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-map-utils.a libtool: install: /usr/bin/install -c .libs/libcoot-map-heavy.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-map-heavy.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-map-heavy.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-map-heavy.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in surface test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" make[2]: Nothing to be done for `install-data-am'. /bin/sh ../libtool --mode=install /usr/bin/install -c libccp4mg-surface.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' libtool: install: /usr/bin/install -c .libs/libccp4mg-surface.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-surface.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libccp4mg-surface.0.dylib libccp4mg-surface.dylib || { rm -f libccp4mg-surface.dylib && ln -s libccp4mg-surface.0.dylib libccp4mg-surface.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libccp4mg-surface.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-surface.la libtool: install: /usr/bin/install -c .libs/libccp4mg-surface.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-surface.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-surface.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-surface.a /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-surface.a(CXXNode.o) has no symbols libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in coot-surface test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" make[2]: Nothing to be done for `install-data-am'. /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-surface.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' libtool: install: /usr/bin/install -c .libs/libcoot-surface.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-surface.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-surface.0.dylib libcoot-surface.dylib || { rm -f libcoot-surface.dylib && ln -s libcoot-surface.0.dylib libcoot-surface.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-surface.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-surface.la libtool: install: /usr/bin/install -c .libs/libcoot-surface.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-surface.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-surface.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-surface.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in lidia-core test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/lidia-core" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/lidia-core" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-lidia-core.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 lbg-shared.hh lbg-molfile.hh lig-build.hh rdkit-interface.hh use-rdkit.hh cod-types.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/lidia-core' libtool: install: /usr/bin/install -c .libs/libcoot-lidia-core.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-lidia-core.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-lidia-core.0.dylib libcoot-lidia-core.dylib || { rm -f libcoot-lidia-core.dylib && ln -s libcoot-lidia-core.0.dylib libcoot-lidia-core.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-lidia-core.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-lidia-core.la libtool: install: /usr/bin/install -c .libs/libcoot-lidia-core.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-lidia-core.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-lidia-core.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-lidia-core.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in coords test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/coords" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/coords" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-coords.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 Bond_lines.h Cartesian.h cos-sin.h mmdb.h mmdb-extras.h utils.h mmdb-crystal.h Bond_lines_ext.h coot-close.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/coords' libtool: install: /usr/bin/install -c .libs/libcoot-coords.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coords.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-coords.0.dylib libcoot-coords.dylib || { rm -f libcoot-coords.dylib && ln -s libcoot-coords.0.dylib libcoot-coords.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-coords.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coords.la libtool: install: /usr/bin/install -c .libs/libcoot-coords.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coords.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coords.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-coords.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in angles test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/angles" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/angles" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-AngleInfo.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 AngleInfo.h ncube.h wrapped-ncube.h '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/angles' libtool: install: /usr/bin/install -c .libs/libcoot-AngleInfo.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-AngleInfo.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-AngleInfo.0.dylib libcoot-AngleInfo.dylib || { rm -f libcoot-AngleInfo.dylib && ln -s libcoot-AngleInfo.0.dylib libcoot-AngleInfo.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-AngleInfo.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-AngleInfo.la libtool: install: /usr/bin/install -c .libs/libcoot-AngleInfo.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-AngleInfo.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-AngleInfo.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-AngleInfo.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in skeleton test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/skeleton" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/skeleton" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-skeleton.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 graphical_skel.h dm-utils.h BuildCas.h '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/skeleton' libtool: install: /usr/bin/install -c .libs/libcoot-skeleton.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-skeleton.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-skeleton.0.dylib libcoot-skeleton.dylib || { rm -f libcoot-skeleton.dylib && ln -s libcoot-skeleton.0.dylib libcoot-skeleton.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-skeleton.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-skeleton.la libtool: install: /usr/bin/install -c .libs/libcoot-skeleton.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-skeleton.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-skeleton.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-skeleton.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in ccp4mg-utils test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/ccp4mg-utils" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/ccp4mg-utils" /bin/sh ../libtool --mode=install /usr/bin/install -c libccp4mg-utils.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 geomutil.h mgtree.h cartesian.h matrix.h quat.h ppmutil.h '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/ccp4mg-utils' libtool: install: /usr/bin/install -c .libs/libccp4mg-utils.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-utils.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libccp4mg-utils.0.dylib libccp4mg-utils.dylib || { rm -f libccp4mg-utils.dylib && ln -s libccp4mg-utils.0.dylib libccp4mg-utils.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libccp4mg-utils.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-utils.la libtool: install: /usr/bin/install -c .libs/libccp4mg-utils.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-utils.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-utils.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-utils.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in density-contour test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/density-contour" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/density-contour" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-isosurface.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 Vectors.h CIsoSurface.h density-contour-triangles.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/density-contour' libtool: install: /usr/bin/install -c .libs/libcoot-isosurface.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-isosurface.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-isosurface.0.dylib libcoot-isosurface.dylib || { rm -f libcoot-isosurface.dylib && ln -s libcoot-isosurface.0.dylib libcoot-isosurface.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-isosurface.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-isosurface.la libtool: install: /usr/bin/install -c .libs/libcoot-isosurface.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-isosurface.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-isosurface.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-isosurface.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in db-main test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/db-main" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/db-main" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-db-main.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' libtool: install: /usr/bin/install -c .libs/libcoot-db-main.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-db-main.0.dylib /usr/bin/install -c -m 644 db-main.hh db-strands.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/db-main' libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-db-main.0.dylib libcoot-db-main.dylib || { rm -f libcoot-db-main.dylib && ln -s libcoot-db-main.0.dylib libcoot-db-main.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-db-main.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-db-main.la libtool: install: /usr/bin/install -c .libs/libcoot-db-main.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-db-main.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-db-main.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-db-main.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in ideal test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/ideal" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/ideal" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-ideal.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 test-indexing.hh simple-restraint.hh pepflip.hh regularize-minimol.hh lograma.h parallel-planes.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/ideal' libtool: install: /usr/bin/install -c .libs/libcoot-ideal.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-ideal.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-ideal.0.dylib libcoot-ideal.dylib || { rm -f libcoot-ideal.dylib && ln -s libcoot-ideal.0.dylib libcoot-ideal.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-ideal.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-ideal.la libtool: install: /usr/bin/install -c .libs/libcoot-ideal.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-ideal.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-ideal.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-ideal.a libtool: install: warning: remember to run `libtool --finish /sw/lib' test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" /bin/sh ../libtool --mode=install /usr/bin/install -c mini-rsr '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin' libtool: install: warning: `./libcoot-ideal.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-map-heavy.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-extras.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-heavy.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-extras.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../compat/libcoot-compat.la' has not been installed in `/sw/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: /usr/bin/install -c .libs/mini-rsr /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/mini-rsr Making install in ligand test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/ligand" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/ligand" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-ligand.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c findwaters findligand '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin' /usr/bin/install -c -m 644 ligand.hh residue_by_phi_psi.hh wligand.hh monomer-utils.hh chi-angles.hh dunbrack.hh helix-placement.hh fast-ss-search.hh rigid-body.hh ideal-rna.hh rotamer.hh richardson-rotamer.hh torsion-general.hh primitive-chi-angles.hh dipole.hh base-pairing.hh backrub-rotamer.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/ligand' libtool: install: /usr/bin/install -c .libs/libcoot-ligand.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-ligand.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-ligand.0.dylib libcoot-ligand.dylib || { rm -f libcoot-ligand.dylib && ln -s libcoot-ligand.0.dylib libcoot-ligand.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-ligand.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-ligand.la libtool: install: /usr/bin/install -c .libs/libcoot-ligand.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-ligand.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-ligand.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-ligand.a libtool: install: warning: remember to run `libtool --finish /sw/lib' test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" /bin/sh ../libtool --mode=install /usr/bin/install -c findligand-real findwaters-real '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin' libtool: install: warning: `./libcoot-ligand.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ideal/libcoot-ideal.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/db-main/libcoot-db-main.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../ideal/libcoot-ideal.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-map-heavy.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-extras.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-heavy.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `../db-main/libcoot-db-main.la' has not been installed in `/sw/lib' libtool: install: warning: `../ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-extras.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `../compat/libcoot-compat.la' has not been installed in `/sw/lib' libtool: install: /usr/bin/install -c .libs/findligand-real /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/findligand-real libtool: install: warning: `./libcoot-ligand.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ideal/libcoot-ideal.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/db-main/libcoot-db-main.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../ideal/libcoot-ideal.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-map-heavy.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-extras.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-heavy.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `../ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../db-main/libcoot-db-main.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-extras.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `../compat/libcoot-compat.la' has not been installed in `/sw/lib' libtool: install: /usr/bin/install -c .libs/findwaters-real /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/findwaters-real Making install in high-res test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/high-res" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/high-res" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-high-res.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 high-res.hh coot-atom-graph.hh coot-node-info.hh sequence-assignment.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/high-res' libtool: install: /usr/bin/install -c .libs/libcoot-high-res.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-high-res.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-high-res.0.dylib libcoot-high-res.dylib || { rm -f libcoot-high-res.dylib && ln -s libcoot-high-res.0.dylib libcoot-high-res.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-high-res.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-high-res.la libtool: install: /usr/bin/install -c .libs/libcoot-high-res.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-high-res.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-high-res.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-high-res.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in build test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/build" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/build" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-cabuild.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 CalphaBuild.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/build' libtool: install: /usr/bin/install -c .libs/libcoot-cabuild.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-cabuild.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-cabuild.0.dylib libcoot-cabuild.dylib || { rm -f libcoot-cabuild.dylib && ln -s libcoot-cabuild.0.dylib libcoot-cabuild.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-cabuild.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-cabuild.la libtool: install: /usr/bin/install -c .libs/libcoot-cabuild.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-cabuild.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-cabuild.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-cabuild.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in greg-tests make[2]: Nothing to be done for `install-exec-am'. make[2]: Nothing to be done for `install-data-am'. Making install in python-tests make[2]: Nothing to be done for `install-exec-am'. make[2]: Nothing to be done for `install-data-am'. Making install in analysis test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/analysis" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/analysis" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-analysis.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 bfkurt.hh mogul-interface.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/analysis' libtool: install: /usr/bin/install -c .libs/libcoot-analysis.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-analysis.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-analysis.0.dylib libcoot-analysis.dylib || { rm -f libcoot-analysis.dylib && ln -s libcoot-analysis.0.dylib libcoot-analysis.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-analysis.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-analysis.la libtool: install: /usr/bin/install -c .libs/libcoot-analysis.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-analysis.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-analysis.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-analysis.a libtool: install: warning: remember to run `libtool --finish /sw/lib' test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" /bin/sh ../libtool --mode=install /usr/bin/install -c bfactan '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin' libtool: install: warning: `libcoot-analysis.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: /usr/bin/install -c .libs/bfactan /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/bfactan Making install in tw test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/tw" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/tw" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-tw.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 coot-tw.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/tw' libtool: install: /usr/bin/install -c .libs/libcoot-tw.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-tw.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-tw.0.dylib libcoot-tw.dylib || { rm -f libcoot-tw.dylib && ln -s libcoot-tw.0.dylib libcoot-tw.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-tw.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-tw.la libtool: install: /usr/bin/install -c .libs/libcoot-tw.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-tw.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-tw.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-tw.a /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-tw.a(tw.o) has no symbols warning: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: warning for library: /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-tw.a the table of contents is empty (no object file members in the library define global symbols) libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in libgtkgraph test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" make[2]: Nothing to be done for `install-data-am'. /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-gtkgraph.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' libtool: install: /usr/bin/install -c .libs/libcoot-gtkgraph.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-gtkgraph.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-gtkgraph.0.dylib libcoot-gtkgraph.dylib || { rm -f libcoot-gtkgraph.dylib && ln -s libcoot-gtkgraph.0.dylib libcoot-gtkgraph.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-gtkgraph.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-gtkgraph.la libtool: install: /usr/bin/install -c .libs/libcoot-gtkgraph.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-gtkgraph.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-gtkgraph.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-gtkgraph.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in lbg test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/pixmaps" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/pixmaps" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/lbg" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/lbg" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot" /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-lidia.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 lbg.glade lbg-callbacks.cc '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot' libtool: install: /usr/bin/install -c .libs/libcoot-lidia.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-lidia.0.dylib /usr/bin/install -c -m 644 lbg.hh wmolecule.hh flev-annotations.hh graphics-c-interface-functions.hh lbg-drag-and-drop.hh qed-interface.hh alerts.hh pi-stacking.hh '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include/coot/lbg' /usr/bin/install -c -m 644 3-c-new.svg 6-c-shadow-experiment.svg single.svg 3-c-other.svg 6-c.svg sp3.svg 3-c.svg 7-c.svg stereo-out.svg 4-c.svg 8-c.svg TheStructorr_magnifying_glass-32.svg 5-c.svg Anonymous_Architetto_--_Chiave.svg TheStructorr_magnifying_glass.svg 6-c-arom.svg charge.svg triple.svg 6-c-exp-2.svg double.svg Trash-hydrogens-Andy_Trash_Can.svg face-smile.svg 05_Hotel_Icon_Hair_Salon.svg '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/pixmaps' libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-lidia.0.dylib libcoot-lidia.dylib || { rm -f libcoot-lidia.dylib && ln -s libcoot-lidia.0.dylib libcoot-lidia.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-lidia.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-lidia.la libtool: install: /usr/bin/install -c .libs/libcoot-lidia.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-lidia.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-lidia.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-lidia.a libtool: install: warning: remember to run `libtool --finish /sw/lib' test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" /bin/sh ../libtool --mode=install /usr/bin/install -c lidia '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin' libtool: install: warning: `./libcoot-lidia.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: /usr/bin/install -c .libs/lidia /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/lidia Making install in cootaneer test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot" /bin/sh ../libtool --mode=install /usr/bin/install -c libcootaneer.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 cootaneer-llk-2.40.dat '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot' libtool: install: /usr/bin/install -c .libs/libcootaneer.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootaneer.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcootaneer.0.dylib libcootaneer.dylib || { rm -f libcootaneer.dylib && ln -s libcootaneer.0.dylib libcootaneer.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcootaneer.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootaneer.la libtool: install: /usr/bin/install -c .libs/libcootaneer.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootaneer.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootaneer.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootaneer.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in cootilus test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot" /bin/sh ../libtool --mode=install /usr/bin/install -c libcootilus.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' /usr/bin/install -c -m 644 nautilus_lib.pdb '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot' libtool: install: /usr/bin/install -c .libs/libcootilus.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootilus.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcootilus.0.dylib libcootilus.dylib || { rm -f libcootilus.dylib && ln -s libcootilus.0.dylib libcootilus.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcootilus.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootilus.la libtool: install: /usr/bin/install -c .libs/libcootilus.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootilus.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootilus.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootilus.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in goograph test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib" make[2]: Nothing to be done for `install-data-am'. /bin/sh ../libtool --mode=install /usr/bin/install -c libcoot-goograph.la '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib' libtool: install: /usr/bin/install -c .libs/libcoot-goograph.0.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-goograph.0.dylib libtool: install: (cd /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib && { ln -s -f libcoot-goograph.0.dylib libcoot-goograph.dylib || { rm -f libcoot-goograph.dylib && ln -s libcoot-goograph.0.dylib libcoot-goograph.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-goograph.lai /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-goograph.la libtool: install: /usr/bin/install -c .libs/libcoot-goograph.a /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-goograph.a libtool: install: chmod 644 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-goograph.a libtool: install: ranlib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-goograph.a libtool: install: warning: remember to run `libtool --finish /sw/lib' Making install in src test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python" /usr/bin/install -c coot density-score-by-residue '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin' /usr/bin/install -c coot.py '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python' /bin/sh ../libtool --mode=install /usr/bin/install -c coot-real density-score-by-residue-real fix-nomenclature-errors '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin' libtool: install: warning: `../lbg/libcoot-lidia.la' has not been installed in `/sw/lib' libtool: install: warning: `../ligand/libcoot-ligand.la' has not been installed in `/sw/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `../goograph/libcoot-goograph.la' has not been installed in `/sw/lib' libtool: install: warning: `../libgtkgraph/libcoot-gtkgraph.la' has not been installed in `/sw/lib' libtool: install: warning: `../density-contour/libcoot-isosurface.la' has not been installed in `/sw/lib' libtool: install: warning: `../build/libcoot-cabuild.la' has not been installed in `/sw/lib' libtool: install: warning: `../skeleton/libcoot-skeleton.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/angles/libcoot-AngleInfo.la' has not been installed in `/sw/lib' libtool: install: warning: `../angles/libcoot-AngleInfo.la' has not been installed in `/sw/lib' libtool: install: warning: `../db-main/libcoot-db-main.la' has not been installed in `/sw/lib' libtool: install: warning: `../high-res/libcoot-high-res.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ligand/libcoot-ligand.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ideal/libcoot-ideal.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/db-main/libcoot-db-main.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../ideal/libcoot-ideal.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-map-heavy.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-extras.la' has not been installed in `/sw/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-surface/libcoot-surface.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/surface/libccp4mg-surface.la' has not been installed in `/sw/lib' libtool: install: warning: `../surface/libccp4mg-surface.la' has not been installed in `/sw/lib' libtool: install: warning: `../ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-heavy.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-extras.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `../analysis/libcoot-analysis.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../protein_db/libcoot-protein-db.la' has not been installed in `/sw/lib' libtool: install: warning: `../cootilus/libcootilus.la' has not been installed in `/sw/lib' libtool: install: warning: `../cootaneer/libcootaneer.la' has not been installed in `/sw/lib' libtool: install: warning: `../compat/libcoot-compat.la' has not been installed in `/sw/lib' libtool: install: /usr/bin/install -c .libs/coot-real /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot-real libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../compat/libcoot-compat.la' has not been installed in `/sw/lib' libtool: install: /usr/bin/install -c .libs/density-score-by-residue-real /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/density-score-by-residue-real libtool: install: warning: `../ligand/libcoot-ligand.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ideal/libcoot-ideal.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/db-main/libcoot-db-main.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../db-main/libcoot-db-main.la' has not been installed in `/sw/lib' libtool: install: warning: `../ideal/libcoot-ideal.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-map-heavy.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-extras.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-heavy.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `../ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-extras.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/coot-utils/libcoot-coord-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/geometry/libcoot-geometry.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: warning: `/sw/build.build/coot-0.8-pre-revision-5067-1/coot-0.8-pre/utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/sw/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/sw/lib' libtool: install: /usr/bin/install -c .libs/fix-nomenclature-errors /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/fix-nomenclature-errors Making install in data make[2]: Nothing to be done for `install-exec-am'. test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/data" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/data" /usr/bin/install -c -m 644 tutorial-modern.pdb rnasa-1.8-all_refmac1.mtz '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/data' Making install in rama-data make[2]: Nothing to be done for `install-exec-am'. test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/rama-data" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/rama-data" /usr/bin/install -c -m 644 rota500-arg.data rota500-asn.data rota500-asp.data rota500-cys.data rota500-gln.data rota500-glu.data rota500-his.data rota500-ile.data rota500-leu.data rota500-lys.data rota500-met.data rota500-phetyr.data rota500-pro.data rota500-ser.data rota500-thr.data rota500-trp.data rota500-val.data '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/rama-data' Making install in doc make[2]: Nothing to be done for `install-exec-am'. make[2]: Nothing to be done for `install-data-am'. Making install in rcrane make[2]: Nothing to be done for `install-exec-am'. test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python/rcrane" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python/rcrane" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python/rcrane/data" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python/rcrane/data" mkdir: /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python/rcrane: File exists /usr/bin/install -c -m 644 CHANGELOG.txt buildPhosOxy.py installRCrane.py pseudoMolecule.py selectMapDialog.py LICENSE.txt calcCoords.py launch.py pseudoPredictor.py settings.py chain.py linearInterp.py puckerList.py smoothProb.py NOTICE.txt citationPopup.py logo.svg reviewSuitesGui.py stats.py README.txt coot_gui_adapter.py menu.py revisionNum.py strucCalc.py __init__.py coot_utils_adapter.py nextPhos.py rotData.py suite.py about.py nucleotide.py rotamerSeq.py thetaEtaPredictor.py bondLength.py guiUtils.py phenixRestraints.py rotamerize.py traceGui.py buildInitSugar.py icon.svg '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python/rcrane' /usr/bin/install -c -m 644 data/bases.pdb data/phosAngleSmoothed.csv data/sugarDists.csv data/c2p.pdb data/phosDistSmoothed.csv data/sugarPhosSugarAngleSmoothed.csv data/c3p.pdb data/pseudoChiSmoothed.csv data/thetaEtaClusts.csv data/dihedData.csv data/smoothedPuckerDist.csv data/endingPDists.csv data/startingPDists.csv '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python/rcrane/data' /usr/bin/install -c -m 644 preLaunchCheck.py safelog.py extendChain.py reportInputErrors.py '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python/rcrane' Making install in pixmaps make[2]: Nothing to be done for `install-exec-am'. test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/pixmaps" || .././install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/pixmaps" /usr/bin/install -c -m 644 coot-0.8-pre.png add-alt-conf.png dna.svg probe-clash.svg add-alt-conf.svg edit-backbone.svg radacina_handcuffs-small.svg add-peptide-1.png edit-chi.png ramachandran.png add-peptide-1.svg edit-chi.svg refine-1.svg add-water.svg emsley.jpg refine.png anchor.svg env-distances.png regularize-1.svg aniso-atom.png env-distances.svg regularize.png aniso-atom.svg eugene.jpg renumber-residues.svg appointment-new.png flip-peptide.png reset-view-32.png atom-at-pointer.png flip-peptide.svg reset-view-32.svg atom-at-pointer.svg generic-display-objects.svg reset-view.png auto-fit-rotamer.png geom.svg reset-view.svg auto-fit-rotamer.svg ghosts.png residue-info.png '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/pixmaps' /usr/bin/install -c -m 644 azerbaijan2.svg ghosts.svg residue-info.svg azerbaijan.svg gln-asn-b-factors.svg rigid-body.png calculate-ghosts.svg gln-asn-b-factorssvg.svg rigid-body.svg cell+symm.png glyco-structures.svg rotamers.png cell+symm.svg gnome-run.png rotamers.svg change-chain-id.svg go-to-atom.svg rtz.png chiral.png go-to-ligand.svg rtz.svg chiral.svg gtk-connect-16.png scroll-wheel.svg connect-to-ccp4.svg gtk-font.png secondary-structure.svg connect-to-oca.svg gtk-open-16.png sequence-view.png connect-to-usf.svg gtk-open-24.png sequence-view.svg connect-to-world.svg gtk-open.png side-chain-180.png kevin.jpg side-chain-180.svg kevin-orig.jpg smiles.png '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/pixmaps' /usr/bin/install -c -m 644 kleywegt.svg smiles.svg map.svg spin-view.png coot-favicon.png merge-molecules.svg spin-view.svg coot-icon.png mutate-auto-fit.svg stereo-view.svg coot-save.png mutate.svg stop.svg coot-save-symm.png panel-screenshot.png temperature.png crosshairs.png peptide-omega.png temperature.svg crosshairs.svg peptide-omega.svg torsion-general.svg delete.png phenixed.svg undo-1.png delete.svg pink-pointer.png undo-1.svg density-fit.svg pink-pointer.svg unknown-blob.png diff-map.png plane-distances.png unknown-blob.svg diff-map.svg plane-distances.svg water-diff-map.svg display-manager.png pointer-distances.png water-drop.svg '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/pixmaps' /usr/bin/install -c -m 644 display-manager.svg pointer-distances.svg '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/pixmaps' make[2]: Nothing to be done for `install-exec-am'. test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/appdata" || ./install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/appdata" test -z "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot" || ./install-sh -c -d "/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot" /usr/bin/install -c -m 644 cootrc standard-residues.pdb colours.def mtrix-to-ncs-matrix.awk syminfo.lib '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot' /usr/bin/install -c -m 644 coot.appdata.xml '/sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/appdata' # # Clean up the 120 MB mess, which zsh makes so much fun: /bin/rm -f **/*.o # Add ancillary files to %i/share/coot: # mkdir -p /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/etc mkdir -p /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/python mkdir -p /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin # # Fix a bug with system python linking if [[ -f /System/Library/Frameworks/Python.framework/Versions/2.7/Python ]];then install_name_tool -change /System/Library/Frameworks/Python.framework/Versions/2.7/Python /sw/lib/python2.7/config/libpython2.7.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot-real elif [[ -f /System/Library/Frameworks/Python.framework/Versions/2.6/Python ]];then install_name_tool -change /System/Library/Frameworks/Python.framework/Versions/2.6/Python /sw/lib/python2.6/config/libpython2.6.dylib /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot-real fi # Reference structures should be in %i/share/coot/reference-structures cp -R ../reference-structures /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/. cp -R * /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/etc/. # The original wrapper creates problems. Get rid of it. # Replace with a new wrapper to set the required PYTHONPATH variable # and a few others as follows: /bin/rm -f /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot echo '#!/bin/sh -f ' > /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot echo 'export GUILE_WARN_DEPRECATED="no"' >> /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot echo "export LC_NUMERIC=C" >> /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot echo "export COOT_REFMAC_LIB_DIR=/sw/share/refmac" >> /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot echo "export COOT_PYTHON_DIR=/sw/share/coot/python" >> /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot echo 'export COOT_SBASE_DIR="/sw/share/ccp4"' >> /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot echo 'export CLIBD="/sw/share/ccp4"' >> /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot echo "export PYTHONPATH=/sw/lib/python2.7/site-packages:/sw/lib/python2.7/site-packages/gtk-2.0:/sw/share/coot/python" >> /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot echo "/sw/bin/coot-real \"\$@\" " >> /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot chmod a+x /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/bin/coot # Clean up the rest of the mess. /bin/rm -rf /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/include /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/**/.libs /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/*.la /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/coot/etc/**/*.la sudo -u fink-bld [ENV] sh -c /tmp/fink.ptMXU /usr/bin/install -d -m 700 /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/doc/coot /bin/cp -r README /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/doc/coot/ /bin/cp -r AUTHORS /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/doc/coot/ /bin/cp -r NEWS /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/doc/coot/ /bin/cp -r COPYING /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/doc/coot/ /bin/cp -r ABOUT-NLS /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/doc/coot/ /bin/cp -r BUGS /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/doc/coot/ /bin/cp -r TODO /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/doc/coot/ /bin/chmod -R go=u-w /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/doc/coot /bin/rm -f /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/info/dir /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/info/dir.old /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/info/dir /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/share/info/dir.old /bin/rm -rf /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1 /bin/mkdir -p /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw /bin/mkdir -p /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1 sudo -u fink-bld [ENV] sh -c /tmp/fink.Pg9ba /usr/bin/install -d -m 755 /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/lib /bin/mv /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libccp4mg-*.0*.dylib /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/lib/ /bin/mv /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcoot-*.0*.dylib /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/lib/ /bin/mv /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootaneer.0*.dylib /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/lib/ /bin/mv /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/libcootilus.0*.dylib /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/lib/ /usr/bin/install -d -m 700 /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/doc/coot-shlibs /bin/cp -r README /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/doc/coot-shlibs/ /bin/cp -r AUTHORS /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/doc/coot-shlibs/ /bin/cp -r NEWS /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/doc/coot-shlibs/ /bin/cp -r COPYING /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/doc/coot-shlibs/ /bin/cp -r ABOUT-NLS /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/doc/coot-shlibs/ /bin/cp -r BUGS /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/doc/coot-shlibs/ /bin/cp -r TODO /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/doc/coot-shlibs/ /bin/chmod -R go=u-w /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/doc/coot-shlibs /bin/rm -f /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/info/dir /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/info/dir.old /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/info/dir /sw/build.build/root-coot-shlibs-0.8-pre-revision-5067-1/sw/share/info/dir.old /bin/rm -rf /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1 /bin/mkdir -p /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw /bin/mkdir -p /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1 sudo -u fink-bld [ENV] sh -c /tmp/fink.TUjpr /usr/bin/install -d -m 755 /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/lib /bin/mv /sw/build.build/root-coot-0.8-pre-revision-5067-1/sw/lib/*.a /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/lib/ /usr/bin/install -d -m 700 /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/doc/coot-dev /bin/cp -r README /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/doc/coot-dev/ /bin/cp -r AUTHORS /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/doc/coot-dev/ /bin/cp -r NEWS /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/doc/coot-dev/ /bin/cp -r COPYING /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/doc/coot-dev/ /bin/cp -r ABOUT-NLS /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/doc/coot-dev/ /bin/cp -r BUGS /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/doc/coot-dev/ /bin/cp -r TODO /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/doc/coot-dev/ /bin/chmod -R go=u-w /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/doc/coot-dev /bin/rm -f /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/info/dir /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/info/dir.old /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/info/dir /sw/build.build/root-coot-dev-0.8-pre-revision-5067-1/sw/share/info/dir.old Reverting ownership of install dir to root Writing control file... Writing md5sums file... env LANG=C LC_ALL=C dpkg-deb -b root-coot-0.8-pre-revision-5067-1 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `coot' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/coot_0.8-pre-revision-5067-1_darwin-x86_64.deb'. Reverting ownership of install dir to root Writing control file... Creating shlibs files... Writing md5sums file... env LANG=C LC_ALL=C dpkg-deb -b root-coot-shlibs-0.8-pre-revision-5067-1 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `coot-shlibs' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/coot-shlibs_0.8-pre-revision-5067-1_darwin-x86_64.deb'. Reverting ownership of install dir to root Writing control file... Writing md5sums file... env LANG=C LC_ALL=C dpkg-deb -b root-coot-dev-0.8-pre-revision-5067-1 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `coot-dev' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/coot-dev_0.8-pre-revision-5067-1_darwin-x86_64.deb'. Removing runtime build-lock... Removing build-lock package... /sw/bin/dpkg-lockwait -r fink-buildlock-coot-0.8-pre-revision-5067-1 (Reading database ... 81574 files and directories currently installed.) Removing fink-buildlock-coot-0.8-pre-revision-5067-1 ...