printf ' ' | fink --no-use-binary-dist --yes --build-as-nobody rebuild libghemical5 2>&1 The package 'libghemical5' will be built without being installed. Reading build dependency for libghemical5-2.99.1-1006... Reading dependency for libghemical5-2.99.1-1006... Reading dependency for libghemical5-shlibs-2.99.1-1006... Reading build conflict for libghemical5-2.99.1-1006... The package 'intltool40' will be installed. Reading dependency for intltool40-0.50.2-401... Reading runtime dependency for intltool40-0.50.2-401... 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 'mopac7-dev' will be installed. Reading dependency for mopac7-dev-1.15-3... Reading runtime dependency for mopac7-dev-1.15-3... The package 'pkgconfig' will be installed. Reading dependency for pkgconfig-0.28-1... Reading runtime dependency for pkgconfig-0.28-1... The package 'mopac7-shlibs' will be installed. Reading dependency for mopac7-shlibs-1.15-3... Reading runtime dependency for mopac7-shlibs-1.15-3... The package 'gettext-tools' will be installed. Reading dependency for gettext-tools-0.18.3.1-1... Reading runtime dependency for gettext-tools-0.18.3.1-1... The package 'xml-parser-pm5162' will be installed. Reading dependency for xml-parser-pm5162-2.41-2... Reading runtime dependency for xml-parser-pm5162-2.41-2... 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 '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 '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 'xdg-base' will be installed. Reading dependency for xdg-base-0.8-2... Reading runtime dependency for xdg-base-0.8-2... The following package will be rebuilt: libghemical5 The following 11 additional packages will be installed: expat1-shlibs gettext-bin gettext-tools glib2-shlibs intltool40 libgettext8-dev mopac7-dev mopac7-shlibs pkgconfig xdg-base xml-parser-pm5162 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/libghemical-2.99.1.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 760k 0 1205 0 0 1389 0 0:09:20 --:--:-- 0:09:20 1388 12 760k 12 93877 0 0 79958 0 0:00:09 0:00:01 0:00:08 79963 100 760k 100 760k 0 0 447k 0 0:00:01 0:00:01 --:--:-- 447k Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/base/expat1-shlibs_2.1.0-1_darwin-x86_64.deb Selecting previously deselected package expat1-shlibs. (Reading database ... 4740 files and directories currently installed.) Unpacking expat1-shlibs (from .../expat1-shlibs_2.1.0-1_darwin-x86_64.deb) ... Setting up expat1-shlibs (2.1.0-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/gettext-tools_0.18.3.1-1_darwin-x86_64.deb Selecting previously deselected package gettext-tools. (Reading database ... 4745 files and directories currently installed.) Unpacking gettext-tools (from .../gettext-tools_0.18.3.1-1_darwin-x86_64.deb) ... Setting up gettext-tools (0.18.3.1-1) ... * gettext: (gettext). GNU gettext utilities. install-info(/sw/share/info/gettext.info): creating new section `GNU Gettext Utilities' Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/base/libgettext8-dev_0.18.3.1-2_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/base/gettext-bin_0.18.3.1-2_darwin-x86_64.deb Selecting previously deselected package libgettext8-dev. (Reading database ... 6592 files and directories currently installed.) Unpacking libgettext8-dev (from .../libgettext8-dev_0.18.3.1-2_darwin-x86_64.deb) ... Selecting previously deselected package gettext-bin. Unpacking gettext-bin (from .../gettext-bin_0.18.3.1-2_darwin-x86_64.deb) ... Setting up gettext-bin (0.18.3.1-2) ... Setting up libgettext8-dev (0.18.3.1-2) ... Clearing dependency_libs of .la files being installed Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/mopac7-dev_1.15-3_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/mopac7-shlibs_1.15-3_darwin-x86_64.deb Selecting previously deselected package mopac7-dev. (Reading database ... 6677 files and directories currently installed.) Unpacking mopac7-dev (from .../mopac7-dev_1.15-3_darwin-x86_64.deb) ... Selecting previously deselected package mopac7-shlibs. Unpacking mopac7-shlibs (from .../mopac7-shlibs_1.15-3_darwin-x86_64.deb) ... Setting up mopac7-shlibs (1.15-3) ... Setting up mopac7-dev (1.15-3) ... Clearing dependency_libs of .la files being installed Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/xdg-base_0.8-2_darwin-x86_64.deb Selecting previously deselected package xdg-base. (Reading database ... 6690 files and directories currently installed.) Unpacking xdg-base (from .../xdg-base_0.8-2_darwin-x86_64.deb) ... Setting up xdg-base (0.8-2) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/xml-parser-pm5162_2.41-2_darwin-x86_64.deb Selecting previously deselected package xml-parser-pm5162. (Reading database ... 6692 files and directories currently installed.) Unpacking xml-parser-pm5162 (from .../xml-parser-pm5162_2.41-2_darwin-x86_64.deb) ... Setting up xml-parser-pm5162 (2.41-2) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/glib2-shlibs_2.22.4-8_darwin-x86_64.deb Selecting previously deselected package glib2-shlibs. (Reading database ... 6756 files and directories currently installed.) Unpacking glib2-shlibs (from .../glib2-shlibs_2.22.4-8_darwin-x86_64.deb) ... Setting up glib2-shlibs (2.22.4-8) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/intltool40_0.50.2-401_darwin-x86_64.deb Selecting previously deselected package intltool40. (Reading database ... 6973 files and directories currently installed.) Unpacking intltool40 (from .../intltool40_0.50.2-401_darwin-x86_64.deb) ... Setting up intltool40 (0.50.2-401) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/pkgconfig_0.28-1_darwin-x86_64.deb Selecting previously deselected package pkgconfig. (Reading database ... 6994 files and directories currently installed.) Unpacking pkgconfig (from .../pkgconfig_0.28-1_darwin-x86_64.deb) ... Setting up pkgconfig (0.28-1) ... Setting runtime build-lock... dpkg-deb -b /sw/build.build/root-fink-buildlock-libghemical5-2.99.1-1006 /sw/build.build dpkg-deb: building package `fink-buildlock-libghemical5-2.99.1-1006' in `/sw/build.build/fink-buildlock-libghemical5-2.99.1-1006_2014.08.04-06.32.18_darwin-x86_64.deb'. Installing build-lock package... /sw/bin/dpkg-lockwait -i /sw/build.build/fink-buildlock-libghemical5-2.99.1-1006_2014.08.04-06.32.18_darwin-x86_64.deb Selecting previously deselected package fink-buildlock-libghemical5-2.99.1-1006. (Reading database ... 7007 files and directories currently installed.) Unpacking fink-buildlock-libghemical5-2.99.1-1006 (from .../fink-buildlock-libghemical5-2.99.1-1006_2014.08.04-06.32.18_darwin-x86_64.deb) ... Setting up fink-buildlock-libghemical5-2.99.1-1006 (2014.08.04-06.32.18) ... sudo -u fink-bld [ENV] sh -c /tmp/fink.XQP_F env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/libghemical-2.99.1.tar.gz libghemical-2.99.1/ libghemical-2.99.1/ChangeLog libghemical-2.99.1/Makefile.am libghemical-2.99.1/po/ libghemical-2.99.1/po/ChangeLog libghemical-2.99.1/po/LINGUAS libghemical-2.99.1/po/mk.po libghemical-2.99.1/po/pt_BR.po libghemical-2.99.1/po/POTFILES.in libghemical-2.99.1/po/fi.po libghemical-2.99.1/po/sq.po libghemical-2.99.1/po/Makefile.in.in libghemical-2.99.1/INSTALL libghemical-2.99.1/NEWS libghemical-2.99.1/missing libghemical-2.99.1/install-sh libghemical-2.99.1/depcomp libghemical-2.99.1/AUTHORS libghemical-2.99.1/TODO libghemical-2.99.1/acinclude.m4 libghemical-2.99.1/COPYING libghemical-2.99.1/aclocal.m4 libghemical-2.99.1/Makefile.in libghemical-2.99.1/libghemical.pc.in libghemical-2.99.1/configure.ac libghemical-2.99.1/autogen.sh libghemical-2.99.1/ltmain.sh libghemical-2.99.1/README libghemical-2.99.1/src/ libghemical-2.99.1/src/constraint.cpp libghemical-2.99.1/src/Makefile.am libghemical-2.99.1/src/sasaeval.h libghemical-2.99.1/src/search.cpp libghemical-2.99.1/src/eng1_qm.cpp libghemical-2.99.1/src/eng1_sf_cg.h libghemical-2.99.1/src/pop_ana.cpp libghemical-2.99.1/src/libghemical-features.h.in libghemical-2.99.1/src/seqbuild.h libghemical-2.99.1/src/notice.h libghemical-2.99.1/src/resonance.cpp libghemical-2.99.1/src/conjgrad.h libghemical-2.99.1/src/pop_ana.h libghemical-2.99.1/src/eng1_sf.cpp libghemical-2.99.1/src/mfinder.h libghemical-2.99.1/src/eng2_qm_mm.h libghemical-2.99.1/src/atom.cpp libghemical-2.99.1/src/tab_mm_tripos52.h libghemical-2.99.1/src/libghemicalconfig.h.in libghemical-2.99.1/src/eng1_sf_ua.cpp libghemical-2.99.1/src/eng1_qm_mopac.cpp libghemical-2.99.1/src/eng1_sf.h libghemical-2.99.1/src/typerule.h libghemical-2.99.1/src/resonance.h libghemical-2.99.1/src/intcrd.h libghemical-2.99.1/src/constraint.h libghemical-2.99.1/src/chn_info.cpp libghemical-2.99.1/src/typedef.h libghemical-2.99.1/src/eng1_mm_prmfit.cpp libghemical-2.99.1/src/Makefile.in libghemical-2.99.1/src/utility.cpp libghemical-2.99.1/src/model.cpp libghemical-2.99.1/src/mfinder.cpp libghemical-2.99.1/src/Doxyfile libghemical-2.99.1/src/tab_mm_prmfit.h libghemical-2.99.1/src/eng2_qm_mm.cpp libghemical-2.99.1/src/tab_mm_tripos52.cpp libghemical-2.99.1/src/bond.cpp libghemical-2.99.1/src/notice.cpp libghemical-2.99.1/src/sasaeval.cpp libghemical-2.99.1/src/engine.h libghemical-2.99.1/src/libghemicaldefine.h libghemical-2.99.1/src/moldyn.h libghemical-2.99.1/src/libghemical-features.h libghemical-2.99.1/src/moldyn.cpp libghemical-2.99.1/src/bond.h libghemical-2.99.1/src/eng1_mm.cpp libghemical-2.99.1/src/geomopt.h libghemical-2.99.1/src/eng1_qm_mopac.h libghemical-2.99.1/src/engine.cpp libghemical-2.99.1/src/eng1_mm_default.h libghemical-2.99.1/src/eng1_mm_tripos52.h libghemical-2.99.1/src/eng1_mm_prmfit.h libghemical-2.99.1/src/eng1_sf_cg.cpp libghemical-2.99.1/src/eng1_qm_mpqc.h libghemical-2.99.1/src/tab_mm_default.h libghemical-2.99.1/src/eng1_mm_default.cpp libghemical-2.99.1/src/model.h libghemical-2.99.1/src/utility.h libghemical-2.99.1/src/tab_mm_prmfit.cpp libghemical-2.99.1/src/eng1_sf_ua.h libghemical-2.99.1/src/eng1_mm.h libghemical-2.99.1/src/atom.h libghemical-2.99.1/src/eng1_qm_mpqc.cpp libghemical-2.99.1/src/geomopt.cpp libghemical-2.99.1/src/seqbuild.cpp libghemical-2.99.1/src/v3d.h libghemical-2.99.1/src/conjgrad.cpp libghemical-2.99.1/src/local_i18n.h libghemical-2.99.1/src/tab_mm_default.cpp libghemical-2.99.1/src/eng1_mm_tripos52.cpp libghemical-2.99.1/src/search.h libghemical-2.99.1/src/chn_info.h libghemical-2.99.1/src/eng1_qm.h libghemical-2.99.1/src/typerule.cpp libghemical-2.99.1/src/intcrd.cpp libghemical-2.99.1/bin/ libghemical-2.99.1/bin/Makefile.am libghemical-2.99.1/bin/builder/ libghemical-2.99.1/bin/builder/Makefile.am libghemical-2.99.1/bin/builder/Makefile.in libghemical-2.99.1/bin/builder/nucleic.txt libghemical-2.99.1/bin/builder/amino.txt libghemical-2.99.1/bin/amber/ libghemical-2.99.1/bin/amber/Makefile.am libghemical-2.99.1/bin/amber/all_aminont94.in libghemical-2.99.1/bin/amber/Makefile.in libghemical-2.99.1/bin/amber/all_aminoct94.in libghemical-2.99.1/bin/amber/all_nuc94_MOD.in libghemical-2.99.1/bin/amber/README libghemical-2.99.1/bin/amber/all_amino94_MOD.in libghemical-2.99.1/bin/amber/parm99_frcmod_ff99SB.dat libghemical-2.99.1/bin/Makefile.in libghemical-2.99.1/bin/param_sf/ libghemical-2.99.1/bin/param_sf/Makefile.am libghemical-2.99.1/bin/param_sf/default/ libghemical-2.99.1/bin/param_sf/default/Makefile.am libghemical-2.99.1/bin/param_sf/default/Makefile.in libghemical-2.99.1/bin/param_sf/default/looptor.txt libghemical-2.99.1/bin/param_sf/default/nonbonded.txt libghemical-2.99.1/bin/param_sf/default/loopdip.txt libghemical-2.99.1/bin/param_sf/Makefile.in libghemical-2.99.1/bin/README libghemical-2.99.1/bin/param_mm/ libghemical-2.99.1/bin/param_mm/Makefile.am libghemical-2.99.1/bin/param_mm/prmfit/ libghemical-2.99.1/bin/param_mm/prmfit/Makefile.am libghemical-2.99.1/bin/param_mm/prmfit/parameters1.txt libghemical-2.99.1/bin/param_mm/prmfit/Makefile.in libghemical-2.99.1/bin/param_mm/prmfit/atomtypes.txt libghemical-2.99.1/bin/param_mm/prmfit/parameters3.txt libghemical-2.99.1/bin/param_mm/prmfit/parameters2.txt libghemical-2.99.1/bin/param_mm/prmfit/parameters4.txt libghemical-2.99.1/bin/param_mm/default/ libghemical-2.99.1/bin/param_mm/default/Makefile.am libghemical-2.99.1/bin/param_mm/default/parameters1.txt libghemical-2.99.1/bin/param_mm/default/Makefile.in libghemical-2.99.1/bin/param_mm/default/atomtypes.txt libghemical-2.99.1/bin/param_mm/default/parameters3.txt libghemical-2.99.1/bin/param_mm/default/parameters2.txt libghemical-2.99.1/bin/param_mm/default/parameters4.txt libghemical-2.99.1/bin/param_mm/Makefile.in libghemical-2.99.1/bin/param_mm/tripos52/ libghemical-2.99.1/bin/param_mm/tripos52/Makefile.am libghemical-2.99.1/bin/param_mm/tripos52/parameters5.txt libghemical-2.99.1/bin/param_mm/tripos52/parameters1.txt libghemical-2.99.1/bin/param_mm/tripos52/Makefile.in libghemical-2.99.1/bin/param_mm/tripos52/atomtypes.txt libghemical-2.99.1/bin/param_mm/tripos52/parameters3.txt libghemical-2.99.1/bin/param_mm/tripos52/parameters2.txt libghemical-2.99.1/bin/param_mm/tripos52/parameters4.txt libghemical-2.99.1/config.guess libghemical-2.99.1/configure libghemical-2.99.1/config.sub libghemical-2.99.1/mkinstalldirs libghemical-2.99.1/libghemical.spec sudo -u fink-bld [ENV] sh -c /tmp/fink.pROY6 [ -r /sw/fink/dists/stable/main/finkinfo/sci/libghemical5.patch ] sudo -u fink-bld [ENV] sh -c /tmp/fink.R9SQs patch -p1 < /sw/fink/dists/stable/main/finkinfo/sci/libghemical5.patch patching file src/Makefile.in perl -pi -e 's,-g -O,-O,g;s,-O2,-Os,g;s,libglade-2.0,libmopac7,g' configure sudo -u fink-bld [ENV] sh -c /tmp/fink.33yrF ./configure --prefix=/sw --mandir=/sw/share/man --with-extra-includes=/sw/include --with-extra-libs=/sw/lib --disable-dependency-tracking --enable-mopac7 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 build system type... i386-apple-darwin13.3.0 checking host system type... i386-apple-darwin13.3.0 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 for style of include used by make... GNU checking dependency style of gcc... none 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++... none checking how to run the C preprocessor... gcc -E checking how to run the C++ preprocessor... g++ -E checking for a BSD-compatible install... /usr/bin/install -c checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E 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 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ld option to reload object files... -r checking for BSD-compatible nm... /usr/bin/nm checking whether ln -s works... yes checking how to recognize dependent libraries... pass_all checking for ANSI C header files... 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 dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking how to run the C++ preprocessor... g++ -E checking for g77... no checking for xlf... no checking for f77... no checking for frt... no checking for pgf77... no checking for cf77... no checking for fort77... no checking for fl32... no checking for af77... no checking for xlf90... no checking for f90... no checking for pgf90... no checking for pghpf... no checking for epcf90... no checking for gfortran... no checking for g95... no checking for xlf95... no checking for f95... no checking for fort... no checking for ifort... no checking for ifc... no checking for efc... no checking for pgf95... no checking for lf95... no checking for ftn... no checking whether we are using the GNU Fortran 77 compiler... no checking whether accepts -g... no checking the maximum length of command line arguments... 196608 checking command to parse /usr/bin/nm output from gcc object... ok checking for objdir... .libs checking for ar... ar checking for ranlib... ranlib checking for strip... strip checking for dsymutil... dsymutil checking for nmedit... nmedit checking for -single_module linker flag... yes checking for -exported_symbols_list linker flag... yes checking if gcc supports -fno-rtti -fno-exceptions... yes checking for gcc option to produce PIC... -fno-common checking if gcc PIC flag -fno-common works... yes checking if gcc static flag -static works... no checking if gcc supports -c -o file.o... 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 configure: creating libtool appending configuration tag "CXX" to libtool 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 checking if g++ PIC flag -fno-common works... yes checking if g++ static flag -static works... no checking if g++ supports -c -o file.o... 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 (cached) (cached) checking how to hardcode library paths into programs... immediate appending configuration tag "F77" to libtool checking for ar... /usr/bin/ar checking for sh... /bin/sh checking whether make sets $(MAKE)... (cached) yes checking for pkg-config... /sw/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for intltool >= 0.40.0... 0.50.2 found checking for intltool-update... /sw/bin/intltool-update checking for intltool-merge... /sw/bin/intltool-merge checking for intltool-extract... /sw/bin/intltool-extract checking for xgettext... /sw/bin/xgettext checking for msgmerge... /sw/bin/msgmerge checking for msgfmt... /sw/bin/msgfmt checking for perl... (cached) /usr/bin/perl checking for XML::Parser... ok checking locale.h usability... yes checking locale.h presence... yes checking for locale.h... yes checking for LC_MESSAGES... yes checking libintl.h usability... yes checking libintl.h presence... yes checking for libintl.h... yes checking for ngettext in libc... no checking for bindtextdomain in -lintl... yes checking for ngettext in -lintl... yes checking for dgettext in -lintl... yes checking for bind_textdomain_codeset... yes checking for msgfmt... (cached) /sw/bin/msgfmt checking for dcgettext... yes checking if msgfmt accepts -c... yes checking for gmsgfmt... /sw/bin/msgfmt checking for xgettext... (cached) /sw/bin/xgettext checking whether build environment is sane... yes checking for acos in -lm... yes checking for MOPAC7... yes checking GL/gl.h usability... yes checking GL/gl.h presence... yes checking for GL/gl.h... yes checking for gcc option to accept ISO C99... none needed checking for gcc option to accept ISO Standard C... (cached) none needed checking for inline... inline checking for an ANSI C-conforming const... yes checking for ANSI C header files... (cached) yes configure: build options: ^^^^^^^^^^^^^^ enable MPQC : no enable MOPAC7 : yes configure: creating ./config.status config.status: creating libghemical.pc config.status: creating Makefile config.status: creating bin/Makefile config.status: creating bin/amber/Makefile config.status: creating bin/builder/Makefile config.status: creating bin/param_mm/Makefile config.status: creating bin/param_mm/default/Makefile config.status: creating bin/param_mm/prmfit/Makefile config.status: creating bin/param_mm/tripos52/Makefile config.status: creating bin/param_sf/Makefile config.status: creating bin/param_sf/default/Makefile config.status: creating po/Makefile.in config.status: creating src/Makefile config.status: creating src/libghemicalconfig.h config.status: creating src/libghemical-features.h config.status: executing src/libghemicalconfig2.h commands config.status: executing depfiles commands config.status: executing default-1 commands config.status: executing stamp.h commands config.status: executing po/stamp-it commands make Making all in src /Applications/Xcode.app/Contents/Developer/usr/bin/make all-am /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o atom.lo atom.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o bond.lo bond.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o constraint.lo constraint.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o model.lo model.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o engine.lo engine.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o typerule.lo typerule.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o utility.lo utility.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o chn_info.lo chn_info.cpp mkdir .libs mkdir .libs mkdir .libs mkdir: .libs: File exists mkdir: .libs: File exists g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c utility.cpp -fno-common -DPIC -o .libs/utility.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c engine.cpp -fno-common -DPIC -o .libs/engine.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c typerule.cpp -fno-common -DPIC -o .libs/typerule.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c chn_info.cpp -fno-common -DPIC -o .libs/chn_info.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c model.cpp -fno-common -DPIC -o .libs/model.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c bond.cpp -fno-common -DPIC -o .libs/bond.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c atom.cpp -fno-common -DPIC -o .libs/atom.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c constraint.cpp -fno-common -DPIC -o .libs/constraint.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c chn_info.cpp -o chn_info.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c constraint.cpp -o constraint.o >/dev/null 2>&1 atom.cpp:33:44: warning: conversion from string literal to 'char *' is deprecated [-Wdeprecated-writable-strings] element element::current_element = element("C"); ^ 1 warning generated. g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c atom.cpp -o atom.o >/dev/null 2>&1 In file included from model.cpp:31: ./eng1_qm.h:128:148: warning: control reaches end of non-void function [-Wreturn-type] virtual bool SetTorsionConstraint(atom *, atom *, atom *, atom *, f64, f64, bool) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ ./eng1_qm.h:129:135: warning: control reaches end of non-void function [-Wreturn-type] virtual bool RemoveTorsionConstraint(atom *, atom *, atom *, atom *) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c bond.cpp -o bond.o >/dev/null 2>&1 In file included from model.cpp:35: ./eng2_qm_mm.h:90:148: warning: control reaches end of non-void function [-Wreturn-type] virtual bool SetTorsionConstraint(atom *, atom *, atom *, atom *, f64, f64, bool) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ ./eng2_qm_mm.h:91:135: warning: control reaches end of non-void function [-Wreturn-type] virtual bool RemoveTorsionConstraint(atom *, atom *, atom *, atom *) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ model.cpp:320:1: warning: control may reach end of non-void function [-Wreturn-type] } ^ g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c utility.cpp -o utility.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c typerule.cpp -o typerule.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o seqbuild.lo seqbuild.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c engine.cpp -o engine.o >/dev/null 2>&1 model.cpp:4441:82: warning: illegal character encoding in string literal [-Winvalid-source-encoding] txts << "displacement " << b_tab[ac] << " nm^2 = " << (b_tab[ac] * 100.0) << " ^2 "; ^~~~ /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o mfinder.lo mfinder.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c seqbuild.cpp -fno-common -DPIC -o .libs/seqbuild.o /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng1_qm.lo eng1_qm.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng1_qm_mpqc.lo eng1_qm_mpqc.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c mfinder.cpp -fno-common -DPIC -o .libs/mfinder.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_qm.cpp -fno-common -DPIC -o .libs/eng1_qm.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_qm_mpqc.cpp -fno-common -DPIC -o .libs/eng1_qm_mpqc.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_qm_mpqc.cpp -o eng1_qm_mpqc.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng1_qm_mopac.lo eng1_qm_mopac.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_qm_mopac.cpp -fno-common -DPIC -o .libs/eng1_qm_mopac.o /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng1_mm.lo eng1_mm.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_mm.cpp -fno-common -DPIC -o .libs/eng1_mm.o /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng1_mm_tripos52.lo eng1_mm_tripos52.cpp In file included from eng1_qm.cpp:22: ./eng1_qm.h:128:148: warning: control reaches end of non-void function [-Wreturn-type] virtual bool SetTorsionConstraint(atom *, atom *, atom *, atom *, f64, f64, bool) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ ./eng1_qm.h:129:135: warning: control reaches end of non-void function [-Wreturn-type] virtual bool RemoveTorsionConstraint(atom *, atom *, atom *, atom *) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_mm_tripos52.cpp -fno-common -DPIC -o .libs/eng1_mm_tripos52.o 2 warnings generated. g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_qm.cpp -o eng1_qm.o >/dev/null 2>&1 In file included from eng1_qm_mopac.cpp:22: In file included from ./eng1_qm_mopac.h:30: ./eng1_qm.h:128:148: warning: control reaches end of non-void function [-Wreturn-type] virtual bool SetTorsionConstraint(atom *, atom *, atom *, atom *, f64, f64, bool) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ ./eng1_qm.h:129:135: warning: control reaches end of non-void function [-Wreturn-type] virtual bool RemoveTorsionConstraint(atom *, atom *, atom *, atom *) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o tab_mm_tripos52.lo tab_mm_tripos52.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c tab_mm_tripos52.cpp -fno-common -DPIC -o .libs/tab_mm_tripos52.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c mfinder.cpp -o mfinder.o >/dev/null 2>&1 2 warnings generated. g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_qm_mopac.cpp -o eng1_qm_mopac.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng1_mm_default.lo eng1_mm_default.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_mm.cpp -o eng1_mm.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_mm_default.cpp -fno-common -DPIC -o .libs/eng1_mm_default.o 6 warnings generated. g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c seqbuild.cpp -o seqbuild.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c model.cpp -o model.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_mm_tripos52.cpp -o eng1_mm_tripos52.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o tab_mm_default.lo tab_mm_default.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c tab_mm_default.cpp -fno-common -DPIC -o .libs/tab_mm_default.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c tab_mm_tripos52.cpp -o tab_mm_tripos52.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng1_mm_prmfit.lo eng1_mm_prmfit.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o tab_mm_prmfit.lo tab_mm_prmfit.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_mm_prmfit.cpp -fno-common -DPIC -o .libs/eng1_mm_prmfit.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c tab_mm_prmfit.cpp -fno-common -DPIC -o .libs/tab_mm_prmfit.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_mm_default.cpp -o eng1_mm_default.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng1_sf.lo eng1_sf.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_sf.cpp -fno-common -DPIC -o .libs/eng1_sf.o /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng1_sf_ua.lo eng1_sf_ua.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_sf_ua.cpp -fno-common -DPIC -o .libs/eng1_sf_ua.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_sf_ua.cpp -o eng1_sf_ua.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng1_sf_cg.lo eng1_sf_cg.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c tab_mm_prmfit.cpp -o tab_mm_prmfit.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_sf_cg.cpp -fno-common -DPIC -o .libs/eng1_sf_cg.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_sf_cg.cpp -o eng1_sf_cg.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o eng2_qm_mm.lo eng2_qm_mm.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng2_qm_mm.cpp -fno-common -DPIC -o .libs/eng2_qm_mm.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_mm_prmfit.cpp -o eng1_mm_prmfit.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o notice.lo notice.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c notice.cpp -fno-common -DPIC -o .libs/notice.o eng1_sf.cpp:1207:17: warning: comparison of unsigned expression >= 0 is always true [-Wtautological-compare] if ((n2 - 1) >= 0 && mysu->chn_vector[n1].res_vector[n2 - 1].state == SF_STATE_HELIX4) is_helix4 = true; ~~~~~~~~ ^ ~ eng1_sf.cpp:1208:17: warning: comparison of unsigned expression >= 0 is always true [-Wtautological-compare] if ((n2 - 2) >= 0 && mysu->chn_vector[n1].res_vector[n2 - 2].state == SF_STATE_HELIX4) is_helix4 = true; ~~~~~~~~ ^ ~ eng1_sf.cpp:1209:17: warning: comparison of unsigned expression >= 0 is always true [-Wtautological-compare] if ((n2 - 3) >= 0 && mysu->chn_vector[n1].res_vector[n2 - 3].state == SF_STATE_HELIX4) is_helix4 = true; ~~~~~~~~ ^ ~ eng1_sf.cpp:4104:21: warning: equality comparison with extraneous parentheses [-Wparentheses-equality] if ((charge2[n2] == 0.0)) continue; ~~~~~~~~~~~~^~~~~~ eng1_sf.cpp:4104:21: note: remove extraneous parentheses around the comparison to silence this warning if ((charge2[n2] == 0.0)) continue; ~ ^ ~ eng1_sf.cpp:4104:21: note: use '=' to turn this equality comparison into an assignment if ((charge2[n2] == 0.0)) continue; ^~ = In file included from eng2_qm_mm.cpp:22: In file included from ./eng2_qm_mm.h:28: ./eng1_qm.h:128:148: warning: control reaches end of non-void function [-Wreturn-type] virtual bool SetTorsionConstraint(atom *, atom *, atom *, atom *, f64, f64, bool) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ ./eng1_qm.h:129:135: warning: control reaches end of non-void function [-Wreturn-type] virtual bool RemoveTorsionConstraint(atom *, atom *, atom *, atom *) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ In file included from eng2_qm_mm.cpp:22: ./eng2_qm_mm.h:90:148: warning: control reaches end of non-void function [-Wreturn-type] virtual bool SetTorsionConstraint(atom *, atom *, atom *, atom *, f64, f64, bool) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ ./eng2_qm_mm.h:91:135: warning: control reaches end of non-void function [-Wreturn-type] virtual bool RemoveTorsionConstraint(atom *, atom *, atom *, atom *) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ 4 warnings generated. g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng2_qm_mm.cpp -o eng2_qm_mm.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c notice.cpp -o notice.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o conjgrad.lo conjgrad.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c conjgrad.cpp -fno-common -DPIC -o .libs/conjgrad.o /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o intcrd.lo intcrd.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c intcrd.cpp -fno-common -DPIC -o .libs/intcrd.o /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o search.lo search.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o geomopt.lo geomopt.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c search.cpp -fno-common -DPIC -o .libs/search.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c geomopt.cpp -fno-common -DPIC -o .libs/geomopt.o /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o moldyn.lo moldyn.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c conjgrad.cpp -o conjgrad.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c moldyn.cpp -fno-common -DPIC -o .libs/moldyn.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c tab_mm_default.cpp -o tab_mm_default.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o pop_ana.lo pop_ana.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c pop_ana.cpp -fno-common -DPIC -o .libs/pop_ana.o In file included from search.cpp:22: In file included from ./search.h:35: ./eng1_qm.h:128:148: warning: control reaches end of non-void function [-Wreturn-type] virtual bool SetTorsionConstraint(atom *, atom *, atom *, atom *, f64, f64, bool) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ ./eng1_qm.h:129:135: warning: control reaches end of non-void function [-Wreturn-type] virtual bool RemoveTorsionConstraint(atom *, atom *, atom *, atom *) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ In file included from geomopt.cpp:22: In file included from ./geomopt.h:31: ./eng1_qm.h:128:148: warning: control reaches end of non-void function [-Wreturn-type] virtual bool SetTorsionConstraint(atom *, atom *, atom *, atom *, f64, f64, bool) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ ./eng1_qm.h:129:135: warning: control reaches end of non-void function [-Wreturn-type] virtual bool RemoveTorsionConstraint(atom *, atom *, atom *, atom *) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c intcrd.cpp -o intcrd.o >/dev/null 2>&1 2 warnings generated. g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c geomopt.cpp -o geomopt.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o sasaeval.lo sasaeval.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c sasaeval.cpp -fno-common -DPIC -o .libs/sasaeval.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c moldyn.cpp -o moldyn.o >/dev/null 2>&1 In file included from pop_ana.cpp:22: In file included from ./pop_ana.h:31: ./eng1_qm.h:128:148: warning: control reaches end of non-void function [-Wreturn-type] virtual bool SetTorsionConstraint(atom *, atom *, atom *, atom *, f64, f64, bool) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ ./eng1_qm.h:129:135: warning: control reaches end of non-void function [-Wreturn-type] virtual bool RemoveTorsionConstraint(atom *, atom *, atom *, atom *) { assertion_failed(__FILE__, __LINE__, "not yet implemented!"); } ^ 2 warnings generated. g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c search.cpp -o search.o >/dev/null 2>&1 2 warnings generated. g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c pop_ana.cpp -o pop_ana.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\""/sw/share/locale"\" -I/usr/X11R6/include -I/sw/include -Os -c -o resonance.lo resonance.cpp g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c resonance.cpp -fno-common -DPIC -o .libs/resonance.o g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c sasaeval.cpp -o sasaeval.o >/dev/null 2>&1 g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c resonance.cpp -o resonance.o >/dev/null 2>&1 4 warnings generated. g++ -DHAVE_CONFIG_H -I. -I../src -DLOCALE_DIR=\"/sw/share/locale\" -I/usr/X11R6/include -I/sw/include -Os -c eng1_sf.cpp -o eng1_sf.o >/dev/null 2>&1 /bin/sh ../libtool --tag=CXX --mode=link g++ -Os -version-info 5:0:0 -L/sw/lib -o libghemical.la -rpath /sw/lib atom.lo bond.lo constraint.lo model.lo engine.lo typerule.lo utility.lo chn_info.lo seqbuild.lo mfinder.lo eng1_qm.lo eng1_qm_mpqc.lo eng1_qm_mopac.lo eng1_mm.lo eng1_mm_tripos52.lo tab_mm_tripos52.lo eng1_mm_default.lo tab_mm_default.lo eng1_mm_prmfit.lo tab_mm_prmfit.lo eng1_sf.lo eng1_sf_ua.lo eng1_sf_cg.lo eng2_qm_mm.lo notice.lo conjgrad.lo intcrd.lo search.lo geomopt.lo moldyn.lo pop_ana.lo sasaeval.lo resonance.lo -lintl -lm -L/sw/lib -lmopac7 g++ -dynamiclib ${wl}-undefined ${wl}dynamic_lookup -o .libs/libghemical.5.0.0.dylib .libs/atom.o .libs/bond.o .libs/constraint.o .libs/model.o .libs/engine.o .libs/typerule.o .libs/utility.o .libs/chn_info.o .libs/seqbuild.o .libs/mfinder.o .libs/eng1_qm.o .libs/eng1_qm_mpqc.o .libs/eng1_qm_mopac.o .libs/eng1_mm.o .libs/eng1_mm_tripos52.o .libs/tab_mm_tripos52.o .libs/eng1_mm_default.o .libs/tab_mm_default.o .libs/eng1_mm_prmfit.o .libs/tab_mm_prmfit.o .libs/eng1_sf.o .libs/eng1_sf_ua.o .libs/eng1_sf_cg.o .libs/eng2_qm_mm.o .libs/notice.o .libs/conjgrad.o .libs/intcrd.o .libs/search.o .libs/geomopt.o .libs/moldyn.o .libs/pop_ana.o .libs/sasaeval.o .libs/resonance.o -L/sw/lib /sw/lib/libintl.dylib -lm /sw/lib/libmopac7.dylib -install_name /sw/lib/libghemical.5.dylib -compatibility_version 6 -current_version 6.0 -Wl,-single_module dsymutil .libs/libghemical.5.0.0.dylib || : warning: no debug symbols in executable (-arch x86_64) (cd .libs && rm -f libghemical.5.dylib && ln -s libghemical.5.0.0.dylib libghemical.5.dylib) (cd .libs && rm -f libghemical.dylib && ln -s libghemical.5.0.0.dylib libghemical.dylib) ar cru .libs/libghemical.a atom.o bond.o constraint.o model.o engine.o typerule.o utility.o chn_info.o seqbuild.o mfinder.o eng1_qm.o eng1_qm_mpqc.o eng1_qm_mopac.o eng1_mm.o eng1_mm_tripos52.o tab_mm_tripos52.o eng1_mm_default.o tab_mm_default.o eng1_mm_prmfit.o tab_mm_prmfit.o eng1_sf.o eng1_sf_ua.o eng1_sf_cg.o eng2_qm_mm.o notice.o conjgrad.o intcrd.o search.o geomopt.o moldyn.o pop_ana.o sasaeval.o resonance.o /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libghemical.a(eng1_qm_mpqc.o) has no symbols /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libghemical.a(eng1_sf_ua.o) has no symbols /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libghemical.a(eng1_sf_cg.o) has no symbols ranlib .libs/libghemical.a /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libghemical.a(eng1_qm_mpqc.o) has no symbols /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libghemical.a(eng1_sf_ua.o) has no symbols /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: .libs/libghemical.a(eng1_sf_cg.o) has no symbols creating libghemical.la (cd .libs && rm -f libghemical.la && ln -s ../libghemical.la libghemical.la) Making all in bin Making all in amber make[2]: Nothing to be done for `all'. Making all in builder make[2]: Nothing to be done for `all'. Making all in param_mm Making all in default make[3]: Nothing to be done for `all'. Making all in prmfit make[3]: Nothing to be done for `all'. Making all in tripos52 make[3]: Nothing to be done for `all'. make[3]: Nothing to be done for `all-am'. Making all in param_sf Making all in default make[3]: Nothing to be done for `all'. make[3]: Nothing to be done for `all-am'. make[2]: Nothing to be done for `all-am'. Making all in po file=`echo fi | sed 's,.*/,,'`.gmo \ && rm -f $file && /sw/bin/msgfmt -o $file fi.po file=`echo mk | sed 's,.*/,,'`.gmo \ && rm -f $file && /sw/bin/msgfmt -o $file mk.po file=`echo pt_BR | sed 's,.*/,,'`.gmo \ && rm -f $file && /sw/bin/msgfmt -o $file pt_BR.po file=`echo sq | sed 's,.*/,,'`.gmo \ && rm -f $file && /sw/bin/msgfmt -o $file sq.po make[1]: Nothing to be done for `all-am'. /bin/rm -rf /sw/build.build/root-libghemical5-2.99.1-1006 /bin/mkdir -p /sw/build.build/root-libghemical5-2.99.1-1006/sw /bin/mkdir -p /sw/build.build/root-libghemical5-2.99.1-1006/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-libghemical5-2.99.1-1006 sudo -u fink-bld [ENV] sh -c /tmp/fink.roZBy make install DESTDIR=/sw/build.build/root-libghemical5-2.99.1-1006 Making install in src test -z "/sw/lib" || .././install-sh -c -d "/sw/build.build/root-libghemical5-2.99.1-1006/sw/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c 'libghemical.la' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.la' /usr/bin/install -c .libs/libghemical.5.0.0.dylib /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.5.0.0.dylib (cd /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib && { ln -s -f libghemical.5.0.0.dylib libghemical.5.dylib || { rm -f libghemical.5.dylib && ln -s libghemical.5.0.0.dylib libghemical.5.dylib; }; }) (cd /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib && { ln -s -f libghemical.5.0.0.dylib libghemical.dylib || { rm -f libghemical.dylib && ln -s libghemical.5.0.0.dylib libghemical.dylib; }; }) /usr/bin/install -c .libs/libghemical.lai /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.la /usr/bin/install -c .libs/libghemical.a /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.a chmod 644 /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.a ranlib /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.a /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.a(eng1_qm_mpqc.o) has no symbols /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.a(eng1_sf_ua.o) has no symbols /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.a(eng1_sf_cg.o) has no symbols libtool: install: warning: remember to run `libtool --finish /sw/lib' test -z "/sw/include/ghemical" || .././install-sh -c -d "/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical" /usr/bin/install -c -m 644 'libghemicaldefine.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/libghemicaldefine.h' /usr/bin/install -c -m 644 'libghemical-features.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/libghemical-features.h' /usr/bin/install -c -m 644 'local_i18n.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/local_i18n.h' /usr/bin/install -c -m 644 'typedef.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/typedef.h' /usr/bin/install -c -m 644 'v3d.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/v3d.h' /usr/bin/install -c -m 644 'atom.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/atom.h' /usr/bin/install -c -m 644 'bond.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/bond.h' /usr/bin/install -c -m 644 'constraint.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/constraint.h' /usr/bin/install -c -m 644 'model.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/model.h' /usr/bin/install -c -m 644 'engine.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/engine.h' /usr/bin/install -c -m 644 'typerule.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/typerule.h' /usr/bin/install -c -m 644 'utility.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/utility.h' /usr/bin/install -c -m 644 'chn_info.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/chn_info.h' /usr/bin/install -c -m 644 'seqbuild.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/seqbuild.h' /usr/bin/install -c -m 644 'mfinder.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/mfinder.h' /usr/bin/install -c -m 644 'eng1_qm.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng1_qm.h' /usr/bin/install -c -m 644 'eng1_qm_mpqc.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng1_qm_mpqc.h' /usr/bin/install -c -m 644 'eng1_qm_mopac.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng1_qm_mopac.h' /usr/bin/install -c -m 644 'eng1_mm.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng1_mm.h' /usr/bin/install -c -m 644 'eng1_mm_tripos52.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng1_mm_tripos52.h' /usr/bin/install -c -m 644 'tab_mm_tripos52.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/tab_mm_tripos52.h' /usr/bin/install -c -m 644 'eng1_mm_default.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng1_mm_default.h' /usr/bin/install -c -m 644 'tab_mm_default.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/tab_mm_default.h' /usr/bin/install -c -m 644 'eng1_mm_prmfit.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng1_mm_prmfit.h' /usr/bin/install -c -m 644 'tab_mm_prmfit.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/tab_mm_prmfit.h' /usr/bin/install -c -m 644 'eng1_sf.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng1_sf.h' /usr/bin/install -c -m 644 'eng1_sf_ua.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng1_sf_ua.h' /usr/bin/install -c -m 644 'eng1_sf_cg.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng1_sf_cg.h' /usr/bin/install -c -m 644 'eng2_qm_mm.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/eng2_qm_mm.h' /usr/bin/install -c -m 644 'notice.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/notice.h' /usr/bin/install -c -m 644 'conjgrad.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/conjgrad.h' /usr/bin/install -c -m 644 'intcrd.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/intcrd.h' /usr/bin/install -c -m 644 'search.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/search.h' /usr/bin/install -c -m 644 'geomopt.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/geomopt.h' /usr/bin/install -c -m 644 'moldyn.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/moldyn.h' /usr/bin/install -c -m 644 'pop_ana.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/pop_ana.h' /usr/bin/install -c -m 644 'sasaeval.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/sasaeval.h' /usr/bin/install -c -m 644 'resonance.h' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/include/ghemical/resonance.h' Making install in bin Making install in amber make[3]: Nothing to be done for `install-exec-am'. test -z "/sw/share/libghemical/2.99.1/amber" || ../.././install-sh -c -d "/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/amber" /usr/bin/install -c -m 644 'all_amino94_MOD.in' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/amber/all_amino94_MOD.in' /usr/bin/install -c -m 644 'all_aminoct94.in' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/amber/all_aminoct94.in' /usr/bin/install -c -m 644 'all_aminont94.in' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/amber/all_aminont94.in' /usr/bin/install -c -m 644 'all_nuc94_MOD.in' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/amber/all_nuc94_MOD.in' /usr/bin/install -c -m 644 'parm99_frcmod_ff99SB.dat' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/amber/parm99_frcmod_ff99SB.dat' Making install in builder make[3]: Nothing to be done for `install-exec-am'. test -z "/sw/share/libghemical/2.99.1/builder" || ../.././install-sh -c -d "/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/builder" /usr/bin/install -c -m 644 'amino.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/builder/amino.txt' /usr/bin/install -c -m 644 'nucleic.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/builder/nucleic.txt' Making install in param_mm Making install in default make[4]: Nothing to be done for `install-exec-am'. test -z "/sw/share/libghemical/2.99.1/param_mm/default" || ../../.././install-sh -c -d "/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/default" /usr/bin/install -c -m 644 'atomtypes.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/default/atomtypes.txt' /usr/bin/install -c -m 644 'parameters1.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/default/parameters1.txt' /usr/bin/install -c -m 644 'parameters2.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/default/parameters2.txt' /usr/bin/install -c -m 644 'parameters3.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/default/parameters3.txt' /usr/bin/install -c -m 644 'parameters4.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/default/parameters4.txt' Making install in prmfit make[4]: Nothing to be done for `install-exec-am'. test -z "/sw/share/libghemical/2.99.1/param_mm/prmfit" || ../../.././install-sh -c -d "/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/prmfit" /usr/bin/install -c -m 644 'atomtypes.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/prmfit/atomtypes.txt' /usr/bin/install -c -m 644 'parameters1.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/prmfit/parameters1.txt' /usr/bin/install -c -m 644 'parameters2.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/prmfit/parameters2.txt' /usr/bin/install -c -m 644 'parameters3.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/prmfit/parameters3.txt' /usr/bin/install -c -m 644 'parameters4.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/prmfit/parameters4.txt' Making install in tripos52 make[4]: Nothing to be done for `install-exec-am'. test -z "/sw/share/libghemical/2.99.1/param_mm/tripos52" || ../../.././install-sh -c -d "/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/tripos52" /usr/bin/install -c -m 644 'atomtypes.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/tripos52/atomtypes.txt' /usr/bin/install -c -m 644 'parameters1.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/tripos52/parameters1.txt' /usr/bin/install -c -m 644 'parameters2.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/tripos52/parameters2.txt' /usr/bin/install -c -m 644 'parameters3.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/tripos52/parameters3.txt' /usr/bin/install -c -m 644 'parameters4.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/tripos52/parameters4.txt' /usr/bin/install -c -m 644 'parameters5.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_mm/tripos52/parameters5.txt' make[4]: Nothing to be done for `install-exec-am'. make[4]: Nothing to be done for `install-data-am'. Making install in param_sf Making install in default make[4]: Nothing to be done for `install-exec-am'. test -z "/sw/share/libghemical/2.99.1/param_sf/default" || ../../.././install-sh -c -d "/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_sf/default" /usr/bin/install -c -m 644 'loopdip.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_sf/default/loopdip.txt' /usr/bin/install -c -m 644 'looptor.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_sf/default/looptor.txt' /usr/bin/install -c -m 644 'nonbonded.txt' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/libghemical/2.99.1/param_sf/default/nonbonded.txt' make[4]: Nothing to be done for `install-exec-am'. make[4]: 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 po /bin/sh /sw/build.build/libghemical5-2.99.1-1006/libghemical-2.99.1/install-sh -d /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/locale linguas="fi mk pt_BR sq "; \ for lang in $linguas; do \ dir=/sw/build.build/root-libghemical5-2.99.1-1006/sw/share/locale/$lang/LC_MESSAGES; \ /bin/sh /sw/build.build/libghemical5-2.99.1-1006/libghemical-2.99.1/install-sh -d $dir; \ if test -r $lang.gmo; then \ /usr/bin/install -c -m 644 $lang.gmo $dir/libghemical.mo; \ echo "installing $lang.gmo as $dir/libghemical.mo"; \ else \ /usr/bin/install -c -m 644 ./$lang.gmo $dir/libghemical.mo; \ echo "installing ./$lang.gmo as" \ "$dir/libghemical.mo"; \ fi; \ if test -r $lang.gmo.m; then \ /usr/bin/install -c -m 644 $lang.gmo.m $dir/libghemical.mo.m; \ echo "installing $lang.gmo.m as $dir/libghemical.mo.m"; \ else \ if test -r ./$lang.gmo.m ; then \ /usr/bin/install -c -m 644 ./$lang.gmo.m \ $dir/libghemical.mo.m; \ echo "installing ./$lang.gmo.m as" \ "$dir/libghemical.mo.m"; \ else \ true; \ fi; \ fi; \ done installing fi.gmo as /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/locale/fi/LC_MESSAGES/libghemical.mo installing mk.gmo as /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/locale/mk/LC_MESSAGES/libghemical.mo installing pt_BR.gmo as /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/locale/pt_BR/LC_MESSAGES/libghemical.mo installing sq.gmo as /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/locale/sq/LC_MESSAGES/libghemical.mo make[2]: Nothing to be done for `install-exec-am'. test -z "/sw/lib/pkgconfig" || ./install-sh -c -d "/sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/pkgconfig" /usr/bin/install -c -m 644 'libghemical.pc' '/sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/pkgconfig/libghemical.pc' sudo -u fink-bld [ENV] sh -c /tmp/fink.5_6ue /usr/bin/install -d -m 700 /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/doc/libghemical5 /bin/cp -r AUTHORS /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/doc/libghemical5/ /bin/cp -r COPYING /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/doc/libghemical5/ /bin/cp -r NEWS /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/doc/libghemical5/ /bin/cp -r README /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/doc/libghemical5/ /bin/cp -r TODO /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/doc/libghemical5/ /bin/chmod -R go=u-w /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/doc/libghemical5 /bin/rm -f /sw/build.build/root-libghemical5-2.99.1-1006/sw/info/dir /sw/build.build/root-libghemical5-2.99.1-1006/sw/info/dir.old /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/info/dir /sw/build.build/root-libghemical5-2.99.1-1006/sw/share/info/dir.old /bin/rm -rf /sw/build.build/root-libghemical5-shlibs-2.99.1-1006 /bin/mkdir -p /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/sw /bin/mkdir -p /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-libghemical5-shlibs-2.99.1-1006 sudo -u fink-bld [ENV] sh -c /tmp/fink.4Do4m /usr/bin/install -d -m 755 /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/sw/lib /bin/mv /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.5.dylib /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/sw/lib/ /bin/mv /sw/build.build/root-libghemical5-2.99.1-1006/sw/lib/libghemical.5.0.0.dylib /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/sw/lib/ /usr/bin/install -d -m 700 /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/sw/share/doc/libghemical5-shlibs /bin/cp -r COPYING /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/sw/share/doc/libghemical5-shlibs/ /bin/chmod -R go=u-w /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/sw/share/doc/libghemical5-shlibs /bin/rm -f /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/sw/info/dir /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/sw/info/dir.old /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/sw/share/info/dir /sw/build.build/root-libghemical5-shlibs-2.99.1-1006/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-libghemical5-2.99.1-1006 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `libghemical5' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/libghemical5_2.99.1-1006_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-libghemical5-shlibs-2.99.1-1006 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `libghemical5-shlibs' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/libghemical5-shlibs_2.99.1-1006_darwin-x86_64.deb'. Removing runtime build-lock... Removing build-lock package... /sw/bin/dpkg-lockwait -r fink-buildlock-libghemical5-2.99.1-1006 (Reading database ... 7008 files and directories currently installed.) Removing fink-buildlock-libghemical5-2.99.1-1006 ...