printf ' ' | fink --no-use-binary-dist --yes --build-as-nobody rebuild clipper 2>&1 The package 'clipper' will be built without being installed. Reading build dependency for clipper-2.1.20130601-103... Reading dependency for clipper-2.1.20130601-103... Reading dependency for clipper-shlibs-2.1.20130601-103... Reading dependency for clipper-dev-2.1.20130601-103... Reading build conflict for clipper-2.1.20130601-103... 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 'fftw' will be installed. Reading dependency for fftw-2.1.5-1119... Reading runtime dependency for fftw-2.1.5-1119... 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 '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 'gcc49' will be installed. Reading dependency for gcc49-4.9.1-1000... Reading runtime dependency for gcc49-4.9.1-1000... The package 'gcc49-compiler' will be installed. Reading dependency for gcc49-compiler-4.9.1-1000... Reading runtime dependency for gcc49-compiler-4.9.1-1000... 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 '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 '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 '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 '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 '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 '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 'libmpfr4-shlibs' will be installed. Reading dependency for libmpfr4-shlibs-3.1.2-1... Reading runtime dependency for libmpfr4-shlibs-3.1.2-1... The package 'cloog-org2-shlibs' will be installed. Reading dependency for cloog-org2-shlibs-0.18.2-1... Reading runtime dependency for cloog-org2-shlibs-0.18.2-1... The package 'isl-shlibs' will be installed. Reading dependency for isl-shlibs-0.12.2-2... Reading runtime dependency for isl-shlibs-0.12.2-2... The package 'libmpc3-shlibs' will be installed. Reading dependency for libmpc3-shlibs-1.0.2-1... Reading runtime dependency for libmpc3-shlibs-1.0.2-1... The following package will be rebuilt: clipper The following 18 additional packages will be installed: cloog-org2-shlibs fftw fftw-shlibs gcc48-shlibs gcc49 gcc49-compiler gcc49-shlibs gmp5-shlibs isl-shlibs libccp4-dev libccp4-shlibs libgmpxx5-shlibs libmpc3-shlibs libmpfr4-shlibs mmdb-dev mmdb-shlibs ssm-dev ssm-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/clipper-2.1.20130601.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 1867k 0 1204 0 0 816 0 0:39:03 0:00:01 0:39:02 816 11 1867k 11 207k 0 0 128k 0 0:00:14 0:00:01 0:00:13 128k 57 1867k 57 1065k 0 0 409k 0 0:00:04 0:00:02 0:00:02 409k 100 1867k 100 1867k 0 0 567k 0 0:00:03 0:00:03 --:--:-- 567k Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/languages/gcc48-shlibs_4.8.3-1000_darwin-x86_64.deb Selecting previously deselected package gcc48-shlibs. (Reading database ... 4296 files and directories currently installed.) Unpacking gcc48-shlibs (from .../gcc48-shlibs_4.8.3-1000_darwin-x86_64.deb) ... Setting up gcc48-shlibs (4.8.3-1000) ... 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/libs/libgmpxx5-shlibs_6.0.0a-1_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/libs/gmp5-shlibs_6.0.0a-1_darwin-x86_64.deb Selecting previously deselected package libgmpxx5-shlibs. (Reading database ... 4337 files and directories currently installed.) Unpacking libgmpxx5-shlibs (from .../libgmpxx5-shlibs_6.0.0a-1_darwin-x86_64.deb) ... Selecting previously deselected package gmp5-shlibs. Unpacking gmp5-shlibs (from .../gmp5-shlibs_6.0.0a-1_darwin-x86_64.deb) ... Setting up gmp5-shlibs (6.0.0a-1) ... Setting up libgmpxx5-shlibs (6.0.0a-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/libs/libmpfr4-shlibs_3.1.2-1_darwin-x86_64.deb Selecting previously deselected package libmpfr4-shlibs. (Reading database ... 4366 files and directories currently installed.) Unpacking libmpfr4-shlibs (from .../libmpfr4-shlibs_3.1.2-1_darwin-x86_64.deb) ... Setting up libmpfr4-shlibs (3.1.2-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/mmdb-dev_1.25.3-102_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/mmdb-shlibs_1.25.3-102_darwin-x86_64.deb Selecting previously deselected package mmdb-dev. (Reading database ... 4379 files and directories currently installed.) Unpacking mmdb-dev (from .../mmdb-dev_1.25.3-102_darwin-x86_64.deb) ... Selecting previously deselected package mmdb-shlibs. Unpacking mmdb-shlibs (from .../mmdb-shlibs_1.25.3-102_darwin-x86_64.deb) ... Setting up mmdb-shlibs (1.25.3-102) ... Setting up mmdb-dev (1.25.3-102) ... 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/ssm-dev_1.3-102_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/ssm-shlibs_1.3-102_darwin-x86_64.deb Selecting previously deselected package ssm-dev. (Reading database ... 4420 files and directories currently installed.) Unpacking ssm-dev (from .../ssm-dev_1.3-102_darwin-x86_64.deb) ... Selecting previously deselected package ssm-shlibs. Unpacking ssm-shlibs (from .../ssm-shlibs_1.3-102_darwin-x86_64.deb) ... Setting up ssm-dev (1.3-102) ... Clearing dependency_libs of .la files being installed Setting up ssm-shlibs (1.3-102) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/fftw_2.1.5-1119_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/fftw-shlibs_2.1.5-1119_darwin-x86_64.deb Selecting previously deselected package fftw. (Reading database ... 4432 files and directories currently installed.) Unpacking fftw (from .../fftw_2.1.5-1119_darwin-x86_64.deb) ... Selecting previously deselected package fftw-shlibs. Unpacking fftw-shlibs (from .../fftw-shlibs_2.1.5-1119_darwin-x86_64.deb) ... Setting up fftw-shlibs (2.1.5-1119) ... Setting up fftw (2.1.5-1119) ... Clearing dependency_libs of .la files being installed * fftw: (fftw). FFTW User's Manual. Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/devel/isl-shlibs_0.12.2-2_darwin-x86_64.deb Selecting previously deselected package isl-shlibs. (Reading database ... 4501 files and directories currently installed.) Unpacking isl-shlibs (from .../isl-shlibs_0.12.2-2_darwin-x86_64.deb) ... Setting up isl-shlibs (0.12.2-2) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/libs/libmpc3-shlibs_1.0.2-1_darwin-x86_64.deb Selecting previously deselected package libmpc3-shlibs. (Reading database ... 4502 files and directories currently installed.) Unpacking libmpc3-shlibs (from .../libmpc3-shlibs_1.0.2-1_darwin-x86_64.deb) ... Setting up libmpc3-shlibs (1.0.2-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/devel/cloog-org2-shlibs_0.18.2-1_darwin-x86_64.deb Selecting previously deselected package cloog-org2-shlibs. (Reading database ... 4505 files and directories currently installed.) Unpacking cloog-org2-shlibs (from .../cloog-org2-shlibs_0.18.2-1_darwin-x86_64.deb) ... Setting up cloog-org2-shlibs (0.18.2-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/gcc49_4.9.1-1000_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/languages/gcc49-shlibs_4.9.1-1000_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/languages/gcc49-compiler_4.9.1-1000_darwin-x86_64.deb Selecting previously deselected package gcc49. (Reading database ... 4506 files and directories currently installed.) Unpacking gcc49 (from .../gcc49_4.9.1-1000_darwin-x86_64.deb) ... Selecting previously deselected package gcc49-shlibs. Unpacking gcc49-shlibs (from .../gcc49-shlibs_4.9.1-1000_darwin-x86_64.deb) ... Selecting previously deselected package gcc49-compiler. Unpacking gcc49-compiler (from .../gcc49-compiler_4.9.1-1000_darwin-x86_64.deb) ... Setting up gcc49-shlibs (4.9.1-1000) ... Clearing dependency_libs of .la files being installed Setting up gcc49-compiler (4.9.1-1000) ... Clearing dependency_libs of .la files being installed Setting up gcc49 (4.9.1-1000) ... * Classpath Tools: (cp-tools). GNU Classpath Tools Guide install-info(/sw/share/info/cp-tools.info): creating new section `GNU Libraries' * gcc: (gcc). The GNU Compiler Collection. install-info(/sw/share/info/gcc.info): replacing existing dir entry for `gcc' * gfortran: (gfortran). The GNU Fortran Compiler. * Cpp: (cpp). The GNU C preprocessor. * gccinstall: (gccinstall). Installing the GNU Compiler Collection. * libgomp: (libgomp). GNU OpenMP runtime library * Cpplib: (cppinternals). Cpplib internals. * gccint: (gccint). Internals of the GNU Compiler Collection. * Gcj: (gcj). Ahead-of-time compiler for the Java language Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/libccp4-dev_6.4.0-rc1-2_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/libccp4-shlibs_6.4.0-rc1-2_darwin-x86_64.deb Selecting previously deselected package libccp4-dev. (Reading database ... 10111 files and directories currently installed.) Unpacking libccp4-dev (from .../libccp4-dev_6.4.0-rc1-2_darwin-x86_64.deb) ... Selecting previously deselected package libccp4-shlibs. Unpacking libccp4-shlibs (from .../libccp4-shlibs_6.4.0-rc1-2_darwin-x86_64.deb) ... Setting up libccp4-dev (6.4.0-rc1-2) ... Clearing dependency_libs of .la files being installed Setting up libccp4-shlibs (6.4.0-rc1-2) ... Setting runtime build-lock... dpkg-deb -b /sw/build.build/root-fink-buildlock-clipper-2.1.20130601-103 /sw/build.build dpkg-deb: building package `fink-buildlock-clipper-2.1.20130601-103' in `/sw/build.build/fink-buildlock-clipper-2.1.20130601-103_2014.07.30-05.01.46_darwin-x86_64.deb'. Installing build-lock package... /sw/bin/dpkg-lockwait -i /sw/build.build/fink-buildlock-clipper-2.1.20130601-103_2014.07.30-05.01.46_darwin-x86_64.deb Selecting previously deselected package fink-buildlock-clipper-2.1.20130601-103. (Reading database ... 10153 files and directories currently installed.) Unpacking fink-buildlock-clipper-2.1.20130601-103 (from .../fink-buildlock-clipper-2.1.20130601-103_2014.07.30-05.01.46_darwin-x86_64.deb) ... Setting up fink-buildlock-clipper-2.1.20130601-103 (2014.07.30-05.01.46) ... sudo -u fink-bld [ENV] sh -c /tmp/fink.lt8hl env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/clipper-2.1.20130601.tar.gz clipper-2.1.20130601/ clipper-2.1.20130601/examples/ clipper-2.1.20130601/examples/testfile.mtz clipper-2.1.20130601/examples/test.log clipper-2.1.20130601/examples/test.csh clipper-2.1.20130601/examples/symtest.cpp clipper-2.1.20130601/examples/sktest.cpp clipper-2.1.20130601/examples/sgtest.cpp clipper-2.1.20130601/examples/sftest.cpp clipper-2.1.20130601/examples/rfltest.cpp clipper-2.1.20130601/examples/phstest.cpp clipper-2.1.20130601/examples/mtztest.cpp clipper-2.1.20130601/examples/maptest.cpp clipper-2.1.20130601/examples/maketestdata.cpp clipper-2.1.20130601/examples/ftndemo.f clipper-2.1.20130601/examples/ffttest.cpp clipper-2.1.20130601/examples/diffmap.cpp clipper-2.1.20130601/examples/cnstest.cpp clipper-2.1.20130601/examples/cns2mtz.h clipper-2.1.20130601/examples/cns2mtz.cpp clipper-2.1.20130601/examples/cmaplocal.cpp clipper-2.1.20130601/examples/ciftophs.cpp clipper-2.1.20130601/examples/cctbxtest.cpp clipper-2.1.20130601/examples/ccad.cpp clipper-2.1.20130601/examples/COPYING clipper-2.1.20130601/examples/Makefile.in clipper-2.1.20130601/examples/Makefile.am clipper-2.1.20130601/clipper/ clipper-2.1.20130601/clipper/contrib/ clipper-2.1.20130601/clipper/contrib/test_contrib.cpp clipper-2.1.20130601/clipper/contrib/originmatch.cpp clipper-2.1.20130601/clipper/contrib/skeleton.cpp clipper-2.1.20130601/clipper/contrib/mapfilter.cpp clipper-2.1.20130601/clipper/contrib/sfweight.cpp clipper-2.1.20130601/clipper/contrib/function_object_bases.cpp clipper-2.1.20130601/clipper/contrib/sfscale.cpp clipper-2.1.20130601/clipper/contrib/fffear.cpp clipper-2.1.20130601/clipper/contrib/sfcalc_obs.cpp clipper-2.1.20130601/clipper/contrib/edcalc.cpp clipper-2.1.20130601/clipper/contrib/sfcalc.cpp clipper-2.1.20130601/clipper/contrib/convolution_search.cpp clipper-2.1.20130601/clipper/contrib/Makefile.in clipper-2.1.20130601/clipper/contrib/Makefile.am clipper-2.1.20130601/clipper/contrib/test_contrib.h clipper-2.1.20130601/clipper/contrib/sfcalc_obs.h clipper-2.1.20130601/clipper/contrib/function_object_bases.h clipper-2.1.20130601/clipper/contrib/skeleton.h clipper-2.1.20130601/clipper/contrib/sfcalc.h clipper-2.1.20130601/clipper/contrib/fffear.h clipper-2.1.20130601/clipper/contrib/sfweight.h clipper-2.1.20130601/clipper/contrib/originmatch.h clipper-2.1.20130601/clipper/contrib/edcalc.h clipper-2.1.20130601/clipper/contrib/sfscale.h clipper-2.1.20130601/clipper/contrib/mapfilter.h clipper-2.1.20130601/clipper/contrib/convolution_search.h clipper-2.1.20130601/clipper/core/ clipper-2.1.20130601/clipper/core/test_data.cpp clipper-2.1.20130601/clipper/core/test_core.cpp clipper-2.1.20130601/clipper/core/clipper_thread.cpp clipper-2.1.20130601/clipper/core/nxmap.cpp clipper-2.1.20130601/clipper/core/container_types.cpp clipper-2.1.20130601/clipper/core/xmap.cpp clipper-2.1.20130601/clipper/core/map_utils.cpp clipper-2.1.20130601/clipper/core/container_map.cpp clipper-2.1.20130601/clipper/core/map_interp.cpp clipper-2.1.20130601/clipper/core/container_hkl.cpp clipper-2.1.20130601/clipper/core/hkl_operators.cpp clipper-2.1.20130601/clipper/core/container.cpp clipper-2.1.20130601/clipper/core/symop.cpp clipper-2.1.20130601/clipper/core/hkl_lookup.cpp clipper-2.1.20130601/clipper/core/clipper_util.cpp clipper-2.1.20130601/clipper/core/spacegroup_data.cpp clipper-2.1.20130601/clipper/core/hkl_info.cpp clipper-2.1.20130601/clipper/core/clipper_types.cpp clipper-2.1.20130601/clipper/core/spacegroup.cpp clipper-2.1.20130601/clipper/core/hkl_datatypes.cpp clipper-2.1.20130601/clipper/core/clipper_test.cpp clipper-2.1.20130601/clipper/core/rotation.cpp clipper-2.1.20130601/clipper/core/hkl_data.cpp clipper-2.1.20130601/clipper/core/clipper_stats.cpp clipper-2.1.20130601/clipper/core/resol_targetfn.cpp clipper-2.1.20130601/clipper/core/hkl_compute.cpp clipper-2.1.20130601/clipper/core/clipper_message.cpp clipper-2.1.20130601/clipper/core/resol_fn.cpp clipper-2.1.20130601/clipper/core/fftmap_sparse.cpp clipper-2.1.20130601/clipper/core/clipper_memory.cpp clipper-2.1.20130601/clipper/core/resol_basisfn.cpp clipper-2.1.20130601/clipper/core/fftmap.cpp clipper-2.1.20130601/clipper/core/clipper_instance.cpp clipper-2.1.20130601/clipper/core/ramachandran.cpp clipper-2.1.20130601/clipper/core/derivs.cpp clipper-2.1.20130601/clipper/core/cell.cpp clipper-2.1.20130601/clipper/core/nxmap_operator.cpp clipper-2.1.20130601/clipper/core/coords.cpp clipper-2.1.20130601/clipper/core/atomsf.cpp clipper-2.1.20130601/clipper/core/Makefile.in clipper-2.1.20130601/clipper/core/Makefile.am clipper-2.1.20130601/clipper/core/test_data.h clipper-2.1.20130601/clipper/core/test_core.h clipper-2.1.20130601/clipper/core/clipper_thread.h clipper-2.1.20130601/clipper/core/nxmap.h clipper-2.1.20130601/clipper/core/container_map.h clipper-2.1.20130601/clipper/core/map_utils.h clipper-2.1.20130601/clipper/core/container_hkl.h clipper-2.1.20130601/clipper/core/xmap.h clipper-2.1.20130601/clipper/core/map_interp.h clipper-2.1.20130601/clipper/core/container.h clipper-2.1.20130601/clipper/core/hkl_operators.h clipper-2.1.20130601/clipper/core/clipper_util.h clipper-2.1.20130601/clipper/core/hkl_lookup.h clipper-2.1.20130601/clipper/core/clipper_types.h clipper-2.1.20130601/clipper/core/symop.h clipper-2.1.20130601/clipper/core/hkl_info.h clipper-2.1.20130601/clipper/core/clipper_test.h clipper-2.1.20130601/clipper/core/spacegroup_data.h clipper-2.1.20130601/clipper/core/hkl_datatypes.h clipper-2.1.20130601/clipper/core/clipper_sysdep.h clipper-2.1.20130601/clipper/core/spacegroup.h clipper-2.1.20130601/clipper/core/hkl_data.h clipper-2.1.20130601/clipper/core/clipper_stats.h clipper-2.1.20130601/clipper/core/rotation.h clipper-2.1.20130601/clipper/core/hkl_compute.h clipper-2.1.20130601/clipper/core/clipper_precision.h clipper-2.1.20130601/clipper/core/resol_targetfn.h clipper-2.1.20130601/clipper/core/fftmap_sparse.h clipper-2.1.20130601/clipper/core/clipper_message.h clipper-2.1.20130601/clipper/core/resol_fn.h clipper-2.1.20130601/clipper/core/fftmap.h clipper-2.1.20130601/clipper/core/clipper_memory.h clipper-2.1.20130601/clipper/core/resol_basisfn.h clipper-2.1.20130601/clipper/core/derivs.h clipper-2.1.20130601/clipper/core/clipper_instance.h clipper-2.1.20130601/clipper/core/ramachandran.h clipper-2.1.20130601/clipper/core/coords.h clipper-2.1.20130601/clipper/core/cell.h clipper-2.1.20130601/clipper/core/nxmap_operator.h clipper-2.1.20130601/clipper/core/container_types.h clipper-2.1.20130601/clipper/core/atomsf.h clipper-2.1.20130601/clipper/Makefile.in clipper-2.1.20130601/clipper/Makefile.am clipper-2.1.20130601/clipper/minimal-clipper-map.h clipper-2.1.20130601/clipper/clipper-mmdbold.h clipper-2.1.20130601/clipper/clipper-cns.h clipper-2.1.20130601/clipper/minimal-clipper-hkl.h clipper-2.1.20130601/clipper/clipper-mmdb.h clipper-2.1.20130601/clipper/clipper-cif.h clipper-2.1.20130601/clipper/clipper.h clipper-2.1.20130601/clipper/clipper-minimol.h clipper-2.1.20130601/clipper/clipper-cctbx.h clipper-2.1.20130601/clipper/clipper-phs.h clipper-2.1.20130601/clipper/clipper-contrib.h clipper-2.1.20130601/clipper/clipper-ccp4.h clipper-2.1.20130601/clipper/phs/ clipper-2.1.20130601/clipper/phs/phs_io.cpp clipper-2.1.20130601/clipper/phs/phs_io.h clipper-2.1.20130601/clipper/mmdbold/ clipper-2.1.20130601/clipper/mmdbold/container_mmdb.cpp clipper-2.1.20130601/clipper/mmdbold/clipper_mmdb_types.cpp clipper-2.1.20130601/clipper/mmdbold/clipper_mmdb_wrapper.cpp clipper-2.1.20130601/clipper/mmdbold/clipper_mmdb.cpp clipper-2.1.20130601/clipper/mmdbold/container_mmdb.h clipper-2.1.20130601/clipper/mmdbold/clipper_mmdb_types.h clipper-2.1.20130601/clipper/mmdbold/clipper_mmdb_wrapper.h clipper-2.1.20130601/clipper/mmdbold/clipper_mmdb.h clipper-2.1.20130601/clipper/mmdb/ clipper-2.1.20130601/clipper/mmdb/clipper_mmdb.cpp clipper-2.1.20130601/clipper/mmdb/clipper_mmdb.h clipper-2.1.20130601/clipper/minimol/ clipper-2.1.20130601/clipper/minimol/minimol_utils.cpp clipper-2.1.20130601/clipper/minimol/minimol_seq.cpp clipper-2.1.20130601/clipper/minimol/minimol_io.cpp clipper-2.1.20130601/clipper/minimol/minimol_data.cpp clipper-2.1.20130601/clipper/minimol/container_minimol.cpp clipper-2.1.20130601/clipper/minimol/minimol.cpp clipper-2.1.20130601/clipper/minimol/minimol_utils.h clipper-2.1.20130601/clipper/minimol/minimol_io.h clipper-2.1.20130601/clipper/minimol/minimol.h clipper-2.1.20130601/clipper/minimol/minimol_seq.h clipper-2.1.20130601/clipper/minimol/minimol_data.h clipper-2.1.20130601/clipper/minimol/container_minimol.h clipper-2.1.20130601/clipper/fortran/ clipper-2.1.20130601/clipper/fortran/f_interface.cpp clipper-2.1.20130601/clipper/cns/ clipper-2.1.20130601/clipper/cns/cns_map_io.cpp clipper-2.1.20130601/clipper/cns/cns_hkl_io.cpp clipper-2.1.20130601/clipper/cns/cns_map_io.h clipper-2.1.20130601/clipper/cns/cns_hkl_io.h clipper-2.1.20130601/clipper/cif/ clipper-2.1.20130601/clipper/cif/cif_data_io.cpp clipper-2.1.20130601/clipper/cif/cif_data_io.h clipper-2.1.20130601/clipper/cctbx/ clipper-2.1.20130601/clipper/cctbx/clipper_cctbx.cpp clipper-2.1.20130601/clipper/cctbx/clipper_cctbx.h clipper-2.1.20130601/clipper/ccp4/ clipper-2.1.20130601/clipper/ccp4/ccp4_utils.cpp clipper-2.1.20130601/clipper/ccp4/ccp4_map_io.cpp clipper-2.1.20130601/clipper/ccp4/ccp4_mtz_io.cpp clipper-2.1.20130601/clipper/ccp4/ccp4_mtz_types.cpp clipper-2.1.20130601/clipper/ccp4/ccp4_utils.h clipper-2.1.20130601/clipper/ccp4/ccp4_mtz_types.h clipper-2.1.20130601/clipper/ccp4/ccp4_mtz_io.h clipper-2.1.20130601/clipper/ccp4/ccp4_map_io.h clipper-2.1.20130601/INSTALL clipper-2.1.20130601/ChangeLog clipper-2.1.20130601/COPYING clipper-2.1.20130601/AUTHORS clipper-2.1.20130601/configure clipper-2.1.20130601/config.h.in clipper-2.1.20130601/clipper.pc.in clipper-2.1.20130601/Makefile.in clipper-2.1.20130601/Makefile.am clipper-2.1.20130601/aclocal.m4 clipper-2.1.20130601/configure.ac clipper-2.1.20130601/README clipper-2.1.20130601/m4/ clipper-2.1.20130601/m4/lt~obsolete.m4 clipper-2.1.20130601/m4/ltversion.m4 clipper-2.1.20130601/m4/ltsugar.m4 clipper-2.1.20130601/m4/ltoptions.m4 clipper-2.1.20130601/m4/libtool.m4 clipper-2.1.20130601/m4/fftw.m4 clipper-2.1.20130601/m4/ax_pthread.m4 clipper-2.1.20130601/dox/ clipper-2.1.20130601/dox/map_p2.png clipper-2.1.20130601/dox/hkl_objs.eps clipper-2.1.20130601/dox/develop.dox clipper-2.1.20130601/dox/map_p2.eps clipper-2.1.20130601/dox/hierarchy.png clipper-2.1.20130601/dox/coordtypes.dox clipper-2.1.20130601/dox/map_p1.png clipper-2.1.20130601/dox/hierarchy.eps clipper-2.1.20130601/dox/conventions.dox clipper-2.1.20130601/dox/map_p1.eps clipper-2.1.20130601/dox/hier_rep.png clipper-2.1.20130601/dox/container.png clipper-2.1.20130601/dox/installation.dox clipper-2.1.20130601/dox/hier_rep.eps clipper-2.1.20130601/dox/container.eps clipper-2.1.20130601/dox/include.png clipper-2.1.20130601/dox/donors.png clipper-2.1.20130601/dox/clipper_hierarchy.png clipper-2.1.20130601/dox/include.eps clipper-2.1.20130601/dox/donors.eps clipper-2.1.20130601/dox/clipper_hierarchy.eps clipper-2.1.20130601/dox/img_container.png clipper-2.1.20130601/dox/clipper_minimol.dox clipper-2.1.20130601/dox/clipper.dox clipper-2.1.20130601/dox/img_container.eps clipper-2.1.20130601/dox/develop_map.dox clipper-2.1.20130601/dox/class_overview.dox clipper-2.1.20130601/dox/hkl_objs.png clipper-2.1.20130601/dox/develop_hkl.dox clipper-2.1.20130601/build-aux/ clipper-2.1.20130601/build-aux/depcomp clipper-2.1.20130601/build-aux/missing clipper-2.1.20130601/build-aux/ltmain.sh clipper-2.1.20130601/build-aux/install-sh clipper-2.1.20130601/build-aux/config.sub clipper-2.1.20130601/build-aux/config.guess clipper-2.1.20130601/build-aux/ar-lib sudo -u fink-bld [ENV] sh -c /tmp/fink.ueY2_ [ -r /sw/fink/dists/stable/main/finkinfo/sci/clipper.patch ] sudo -u fink-bld [ENV] sh -c /tmp/fink.GmFkh patch -p1 < /sw/fink/dists/stable/main/finkinfo/sci/clipper.patch patching file clipper/cif/cif_data_io.cpp sudo -u fink-bld [ENV] sh -c /tmp/fink.gUQZz /tmp/fink.opQ8W #!/bin/bash -evf LDFLAGS="-L/sw/lib -L/usr/lib" F77="/sw/bin/gfortran-fsf-4.9" FFLAGS="-L/sw/lib/gcc4.9/lib -lgfortran " \ ./configure --prefix=/sw --enable-shared --enable-ccp4 --enable-fortran --with-ccp4=/sw --with-mmdb=/sw --with-fftw=/sw --enable-mmdb --enable-minimol --enable-cif --enable-cns configure: WARNING: unrecognized options: --with-ccp4, --with-mmdb, --with-fftw checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... build-aux/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 whether make supports nested variables... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking for style of include used by make... GNU checking dependency style of g++... gcc3 checking for gcc... gcc 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 ar... ar checking the archiver (ar) interface... ar checking build system type... i386-apple-darwin13.3.0 checking host system type... i386-apple-darwin13.3.0 checking how to print strings... printf 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 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 how to convert i386-apple-darwin13.3.0 file names to i386-apple-darwin13.3.0 format... func_convert_file_noop checking how to convert i386-apple-darwin13.3.0 file names to toolchain format... func_convert_file_noop 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 dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for archiver @FILE support... no checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm output from gcc object... ok checking for sysroot... no checking for mt... no checking if : is a manifest tool... no 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 -force_load linker flag... yes checking how to run the C preprocessor... gcc -E 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 for dlfcn.h... yes 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 how to run the C++ preprocessor... g++ -E 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 whether to enable maintainer-specific portions of Makefiles... no checking whether we are using the GNU Fortran 77 compiler... yes checking whether /sw/bin/gfortran-fsf-4.9 accepts -g... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for /sw/bin/gfortran-fsf-4.9 option to produce PIC... -fno-common checking if /sw/bin/gfortran-fsf-4.9 PIC flag -fno-common works... yes checking if /sw/bin/gfortran-fsf-4.9 static flag -static works... no checking if /sw/bin/gfortran-fsf-4.9 supports -c -o file.o... yes checking if /sw/bin/gfortran-fsf-4.9 supports -c -o file.o... (cached) yes checking whether the /sw/bin/gfortran-fsf-4.9 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 how to get verbose linking output from /sw/bin/gfortran-fsf-4.9... -v checking for Fortran 77 libraries of /sw/bin/gfortran-fsf-4.9... -L/sw/lib/gcc4.9/lib -L/sw/lib -L/usr/lib -L/sw/lib/gcc4.9/lib/gcc/x86_64-apple-darwin13.3.0/4.9.1 -L/sw/lib/gcc4.9/lib/gcc/x86_64-apple-darwin13.3.0/4.9.1/../../.. -lgfortran -lquadmath -lm checking for dummy main to link with Fortran 77 libraries... none checking for Fortran 77 name-mangling scheme... lower case, underscore, no extra underscore checking for library containing cos... none required checking for prefixed single-precision FFTW2 (sfftw.h)... yes checking whether pthreads work with -pthread... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking if more special flags are required for pthreads... -D_THREAD_SAFE checking for PTHREAD_PRIO_INHERIT... yes checking for MMDB_CCIF_Init in -lmmdb... yes checking mmdb/mmdb_manager.h usability... yes checking mmdb/mmdb_manager.h presence... yes checking for mmdb/mmdb_manager.h... yes checking for ccp4_banner in -lccp4c... yes checking ccp4/ccp4_general.h usability... yes checking ccp4/ccp4_general.h presence... yes checking for ccp4/ccp4_general.h... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating clipper/Makefile config.status: creating clipper/core/Makefile config.status: creating clipper/contrib/Makefile config.status: creating examples/Makefile config.status: creating clipper.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --with-ccp4, --with-mmdb, --with-fftw Configuration Summary ------------------------------ core: yes contrib: yes phs: yes cns: yes mmdb: yes mmdbold: no minimol: yes cif: yes ccp4: yes cctbx: no fortran: yes perl -pi -e 's|examples||g' Makefile # Fix for 10.4 libtool issue if [[ $(sw_vers -productVersion) < 10.5 ]]; then sed -e '/verstring=/s/\${wl}//g' < libtool > libtool.fixed mv libtool.fixed libtool fi sw_vers -productVersion # make /Applications/Xcode.app/Contents/Developer/usr/bin/make all-recursive Making all in clipper Making all in core /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -D_THREAD_SAFE -pthread -I/sw/include -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -MT libclipper_core_la-atomsf.lo -MD -MP -MF .deps/libclipper_core_la-atomsf.Tpo -c -o libclipper_core_la-atomsf.lo `test -f 'atomsf.cpp' || echo './'`atomsf.cpp /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -D_THREAD_SAFE -pthread -I/sw/include -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -MT libclipper_core_la-coords.lo -MD -MP -MF .deps/libclipper_core_la-coords.Tpo -c -o libclipper_core_la-coords.lo `test -f 'coords.cpp' || echo './'`coords.cpp /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -D_THREAD_SAFE -pthread -I/sw/include -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -MT libclipper_core_la-nxmap_operator.lo -MD -MP -MF .deps/libclipper_core_la-nxmap_operator.Tpo -c -o libclipper_core_la-nxmap_operator.lo `test -f 'nxmap_operator.cpp' || echo './'`nxmap_operator.cpp /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -D_THREAD_SAFE -pthread -I/sw/include -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -MT libclipper_core_la-cell.lo -MD -MP -MF .deps/libclipper_core_la-cell.Tpo -c -o libclipper_core_la-cell.lo `test -f 'cell.cpp' || echo './'`cell.cpp /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -D_THREAD_SAFE -pthread -I/sw/include -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -MT libclipper_core_la-derivs.lo -MD -MP -MF .deps/libclipper_core_la-derivs.Tpo -c -o libclipper_core_la-derivs.lo `test -f 'derivs.cpp' || echo './'`derivs.cpp /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -D_THREAD_SAFE -pthread -I/sw/include -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -MT libclipper_core_la-ramachandran.lo -MD -MP -MF .deps/libclipper_core_la-ramachandran.Tpo -c -o libclipper_core_la-ramachandran.lo `test -f 'ramachandran.cpp' || echo './'`ramachandran.cpp /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -D_THREAD_SAFE -pthread -I/sw/include -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -MT libclipper_core_la-clipper_instance.lo -MD -MP -MF .deps/libclipper_core_la-clipper_instance.Tpo -c -o libclipper_core_la-clipper_instance.lo `test -f 'clipper_instance.cpp' || echo './'`clipper_instance.cpp /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -D_THREAD_SAFE -pthread -I/sw/include -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -MT libclipper_core_la-fftmap.lo -MD -MP -MF .deps/libclipper_core_la-fftmap.Tpo -c -o libclipper_core_la-fftmap.lo `test -f 'fftmap.cpp' || echo './'`fftmap.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -D_THREAD_SAFE -pthread -I/sw/include -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -MT libclipper_core_la-nxmap_operator.lo -MD -MP -MF .deps/libclipper_core_la-nxmap_operator.Tpo -c nxmap_operator.cpp -fno-common -DPIC -o .libs/libclipper_core_la-nxmap_operator.o 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"cif/.libs" && rm -f "libclipper-cif.la" && ln -s "../libclipper-cif.la" "libclipper-cif.la" ) libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o minimol/.libs/libclipper-minimol.2.dylib minimol/.libs/minimol.o minimol/.libs/container_minimol.o minimol/.libs/minimol_data.o minimol/.libs/minimol_io.o minimol/.libs/minimol_seq.o minimol/.libs/minimol_utils.o -L/sw/lib -L/usr/lib core/.libs/libclipper-core.dylib mmdb/.libs/libclipper-mmdb.dylib /sw/build.build/clipper-2.1.20130601-103/clipper-2.1.20130601/clipper/core/.libs/libclipper-core.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib /sw/lib/libmmdb.dylib -Wl,-dylib_file -Wl,/sw/lib/libclipper-core.2.dylib:/sw/build.build/clipper-2.1.20130601-103/clipper-2.1.20130601/clipper/core/.libs/libclipper-core.dylib -install_name /sw/lib/libclipper-minimol.2.dylib -compatibility_version 3 -current_version 3.1 -Wl,-single_module libtool: link: (cd "minimol/.libs" && rm -f "libclipper-minimol.dylib" && ln -s "libclipper-minimol.2.dylib" "libclipper-minimol.dylib") libtool: link: ar cru minimol/.libs/libclipper-minimol.a minimol/minimol.o minimol/container_minimol.o minimol/minimol_data.o minimol/minimol_io.o minimol/minimol_seq.o minimol/minimol_utils.o libtool: link: ranlib minimol/.libs/libclipper-minimol.a libtool: link: ( cd "minimol/.libs" && rm -f "libclipper-minimol.la" && ln -s "../libclipper-minimol.la" "libclipper-minimol.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -version-info 2:1 -L/sw/lib -L/usr/lib -o fortran/libclipper-fortran.la -rpath /sw/lib fortran/f_interface.lo core/libclipper-core.la contrib/libclipper-contrib.la /bin/sh ../libtool --tag=CXX --mode=link g++ -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -version-info 2:1 -L/sw/lib -L/usr/lib -o cns/libclipper-cns.la -rpath /sw/lib cns/cns_hkl_io.lo cns/cns_map_io.lo core/libclipper-core.la /bin/sh ../libtool --tag=CXX --mode=link g++ -fno-strict-aliasing -I/sw/include -I/sw/include/mmdb -I/sw/include/ssm -I/sw/include/ccp4 -version-info 2:1 -L/sw/lib -L/usr/lib -o ccp4/libclipper-ccp4.la -rpath /sw/lib ccp4/ccp4_mtz_types.lo ccp4/ccp4_mtz_io.lo ccp4/ccp4_map_io.lo ccp4/ccp4_utils.lo core/libclipper-core.la -lccp4c libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o cns/.libs/libclipper-cns.2.dylib cns/.libs/cns_hkl_io.o cns/.libs/cns_map_io.o -L/sw/lib -L/usr/lib core/.libs/libclipper-core.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -install_name /sw/lib/libclipper-cns.2.dylib -compatibility_version 3 -current_version 3.1 -Wl,-single_module libtool: link: (cd "cns/.libs" && rm -f "libclipper-cns.dylib" && ln -s "libclipper-cns.2.dylib" "libclipper-cns.dylib") libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o ccp4/.libs/libclipper-ccp4.2.dylib ccp4/.libs/ccp4_mtz_types.o ccp4/.libs/ccp4_mtz_io.o ccp4/.libs/ccp4_map_io.o ccp4/.libs/ccp4_utils.o -L/sw/lib -L/usr/lib core/.libs/libclipper-core.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib /sw/lib/libccp4c.dylib -install_name /sw/lib/libclipper-ccp4.2.dylib -compatibility_version 3 -current_version 3.1 -Wl,-single_module libtool: link: ar cru cns/.libs/libclipper-cns.a cns/cns_hkl_io.o cns/cns_map_io.o libtool: link: ranlib cns/.libs/libclipper-cns.a libtool: link: g++ -dynamiclib -Wl,-undefined -Wl,dynamic_lookup -o fortran/.libs/libclipper-fortran.2.dylib fortran/.libs/f_interface.o -L/sw/lib -L/usr/lib core/.libs/libclipper-core.dylib contrib/.libs/libclipper-contrib.dylib /sw/build.build/clipper-2.1.20130601-103/clipper-2.1.20130601/clipper/core/.libs/libclipper-core.dylib /sw/lib/libsrfftw.dylib /sw/lib/libsfftw.dylib -Wl,-dylib_file -Wl,/sw/lib/libclipper-core.2.dylib:/sw/build.build/clipper-2.1.20130601-103/clipper-2.1.20130601/clipper/core/.libs/libclipper-core.dylib -install_name /sw/lib/libclipper-fortran.2.dylib -compatibility_version 3 -current_version 3.1 -Wl,-single_module libtool: link: ( cd "cns/.libs" && rm -f "libclipper-cns.la" && ln -s "../libclipper-cns.la" "libclipper-cns.la" ) libtool: link: (cd "ccp4/.libs" && rm -f "libclipper-ccp4.dylib" && ln -s "libclipper-ccp4.2.dylib" "libclipper-ccp4.dylib") libtool: link: ar cru ccp4/.libs/libclipper-ccp4.a ccp4/ccp4_mtz_types.o ccp4/ccp4_mtz_io.o ccp4/ccp4_map_io.o ccp4/ccp4_utils.o libtool: link: ranlib ccp4/.libs/libclipper-ccp4.a libtool: link: (cd "fortran/.libs" && rm -f "libclipper-fortran.dylib" && ln -s "libclipper-fortran.2.dylib" "libclipper-fortran.dylib") libtool: link: ar cru fortran/.libs/libclipper-fortran.a fortran/f_interface.o libtool: link: ranlib fortran/.libs/libclipper-fortran.a libtool: link: ( cd "fortran/.libs" && rm -f "libclipper-fortran.la" && ln -s "../libclipper-fortran.la" "libclipper-fortran.la" ) libtool: link: ( cd "ccp4/.libs" && rm -f "libclipper-ccp4.la" && ln -s "../libclipper-ccp4.la" "libclipper-ccp4.la" ) make[2]: Nothing to be done for `all-am'. /bin/rm -rf /sw/build.build/root-clipper-2.1.20130601-103 /bin/mkdir -p /sw/build.build/root-clipper-2.1.20130601-103/sw /bin/mkdir -p /sw/build.build/root-clipper-2.1.20130601-103/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-clipper-2.1.20130601-103 sudo -u fink-bld [ENV] sh -c /tmp/fink.t1HHV make install DESTDIR=/sw/build.build/root-clipper-2.1.20130601-103 Making install in clipper Making install in core ../../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/lib' /bin/sh ../../libtool --mode=install /usr/bin/install -c libclipper-core.la '/sw/build.build/root-clipper-2.1.20130601-103/sw/lib' libtool: install: /usr/bin/install -c .libs/libclipper-core.2.dylib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-core.2.dylib libtool: install: (cd /sw/build.build/root-clipper-2.1.20130601-103/sw/lib && { ln -s -f libclipper-core.2.dylib libclipper-core.dylib || { rm -f libclipper-core.dylib && ln -s libclipper-core.2.dylib libclipper-core.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libclipper-core.lai /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-core.la libtool: install: /usr/bin/install -c .libs/libclipper-core.a /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-core.a libtool: install: chmod 644 /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-core.a libtool: install: ranlib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-core.a /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-core.a(libclipper_core_la-derivs.o) has no symbols /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-core.a(libclipper_core_la-map_interp.o) has no symbols /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-core.a(libclipper_core_la-container_map.o) has no symbols libtool: install: warning: remember to run `libtool --finish /sw/lib' ../../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/core' /usr/bin/install -c -m 644 atomsf.h container_types.h nxmap_operator.h cell.h coords.h ramachandran.h clipper_instance.h derivs.h resol_basisfn.h clipper_memory.h fftmap.h resol_fn.h clipper_message.h fftmap_sparse.h resol_targetfn.h clipper_precision.h hkl_compute.h rotation.h clipper_stats.h hkl_data.h spacegroup.h clipper_sysdep.h hkl_datatypes.h spacegroup_data.h clipper_test.h hkl_info.h symop.h clipper_types.h hkl_lookup.h clipper_util.h hkl_operators.h container.h map_interp.h xmap.h container_hkl.h map_utils.h container_map.h nxmap.h clipper_thread.h test_core.h '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/core' /usr/bin/install -c -m 644 test_data.h '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/core' Making install in contrib ../../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/lib' /bin/sh ../../libtool --mode=install /usr/bin/install -c libclipper-contrib.la '/sw/build.build/root-clipper-2.1.20130601-103/sw/lib' libtool: install: /usr/bin/install -c .libs/libclipper-contrib.2.dylib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-contrib.2.dylib libtool: install: (cd /sw/build.build/root-clipper-2.1.20130601-103/sw/lib && { ln -s -f libclipper-contrib.2.dylib libclipper-contrib.dylib || { rm -f libclipper-contrib.dylib && ln -s libclipper-contrib.2.dylib libclipper-contrib.dylib; }; }) libtool: install: /usr/bin/install -c .libs/libclipper-contrib.lai /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-contrib.la libtool: install: /usr/bin/install -c .libs/libclipper-contrib.a /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-contrib.a libtool: install: chmod 644 /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-contrib.a libtool: install: ranlib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-contrib.a /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib: file: /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-contrib.a(function_object_bases.o) has no symbols libtool: install: warning: remember to run `libtool --finish /sw/lib' ../../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/contrib' /usr/bin/install -c -m 644 convolution_search.h mapfilter.h sfscale.h edcalc.h originmatch.h sfweight.h fffear.h sfcalc.h skeleton.h function_object_bases.h sfcalc_obs.h test_contrib.h '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/contrib' ../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/lib' /bin/sh ../libtool --mode=install /usr/bin/install -c mmdb/libclipper-mmdb.la minimol/libclipper-minimol.la phs/libclipper-phs.la cif/libclipper-cif.la ccp4/libclipper-ccp4.la cns/libclipper-cns.la fortran/libclipper-fortran.la '/sw/build.build/root-clipper-2.1.20130601-103/sw/lib' libtool: install: /usr/bin/install -c mmdb/.libs/libclipper-mmdb.2.dylib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-mmdb.2.dylib libtool: install: (cd /sw/build.build/root-clipper-2.1.20130601-103/sw/lib && { ln -s -f libclipper-mmdb.2.dylib libclipper-mmdb.dylib || { rm -f libclipper-mmdb.dylib && ln -s libclipper-mmdb.2.dylib libclipper-mmdb.dylib; }; }) libtool: install: /usr/bin/install -c mmdb/.libs/libclipper-mmdb.lai /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-mmdb.la libtool: install: /usr/bin/install -c minimol/.libs/libclipper-minimol.2.dylib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-minimol.2.dylib libtool: install: (cd /sw/build.build/root-clipper-2.1.20130601-103/sw/lib && { ln -s -f libclipper-minimol.2.dylib libclipper-minimol.dylib || { rm -f libclipper-minimol.dylib && ln -s libclipper-minimol.2.dylib libclipper-minimol.dylib; }; }) libtool: install: /usr/bin/install -c minimol/.libs/libclipper-minimol.lai /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-minimol.la libtool: install: /usr/bin/install -c phs/.libs/libclipper-phs.2.dylib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-phs.2.dylib libtool: install: (cd /sw/build.build/root-clipper-2.1.20130601-103/sw/lib && { ln -s -f libclipper-phs.2.dylib libclipper-phs.dylib || { rm -f libclipper-phs.dylib && ln -s libclipper-phs.2.dylib libclipper-phs.dylib; }; }) libtool: install: /usr/bin/install -c phs/.libs/libclipper-phs.lai /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-phs.la libtool: install: /usr/bin/install -c cif/.libs/libclipper-cif.2.dylib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cif.2.dylib libtool: install: (cd /sw/build.build/root-clipper-2.1.20130601-103/sw/lib && { ln -s -f libclipper-cif.2.dylib libclipper-cif.dylib || { rm -f libclipper-cif.dylib && ln -s libclipper-cif.2.dylib libclipper-cif.dylib; }; }) libtool: install: /usr/bin/install -c cif/.libs/libclipper-cif.lai /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cif.la libtool: install: /usr/bin/install -c ccp4/.libs/libclipper-ccp4.2.dylib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-ccp4.2.dylib libtool: install: (cd /sw/build.build/root-clipper-2.1.20130601-103/sw/lib && { ln -s -f libclipper-ccp4.2.dylib libclipper-ccp4.dylib || { rm -f libclipper-ccp4.dylib && ln -s libclipper-ccp4.2.dylib libclipper-ccp4.dylib; }; }) libtool: install: /usr/bin/install -c ccp4/.libs/libclipper-ccp4.lai /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-ccp4.la libtool: install: /usr/bin/install -c cns/.libs/libclipper-cns.2.dylib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cns.2.dylib libtool: install: (cd /sw/build.build/root-clipper-2.1.20130601-103/sw/lib && { ln -s -f libclipper-cns.2.dylib libclipper-cns.dylib || { rm -f libclipper-cns.dylib && ln -s libclipper-cns.2.dylib libclipper-cns.dylib; }; }) libtool: install: /usr/bin/install -c cns/.libs/libclipper-cns.lai /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cns.la libtool: install: /usr/bin/install -c fortran/.libs/libclipper-fortran.2.dylib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-fortran.2.dylib libtool: install: (cd /sw/build.build/root-clipper-2.1.20130601-103/sw/lib && { ln -s -f libclipper-fortran.2.dylib libclipper-fortran.dylib || { rm -f libclipper-fortran.dylib && ln -s libclipper-fortran.2.dylib libclipper-fortran.dylib; }; }) libtool: install: /usr/bin/install -c fortran/.libs/libclipper-fortran.lai /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-fortran.la libtool: install: /usr/bin/install -c mmdb/.libs/libclipper-mmdb.a /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-mmdb.a libtool: install: chmod 644 /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-mmdb.a libtool: install: ranlib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-mmdb.a libtool: install: /usr/bin/install -c minimol/.libs/libclipper-minimol.a /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-minimol.a libtool: install: chmod 644 /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-minimol.a libtool: install: ranlib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-minimol.a libtool: install: /usr/bin/install -c phs/.libs/libclipper-phs.a /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-phs.a libtool: install: chmod 644 /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-phs.a libtool: install: ranlib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-phs.a libtool: install: /usr/bin/install -c cif/.libs/libclipper-cif.a /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cif.a libtool: install: chmod 644 /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cif.a libtool: install: ranlib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cif.a libtool: install: /usr/bin/install -c ccp4/.libs/libclipper-ccp4.a /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-ccp4.a libtool: install: chmod 644 /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-ccp4.a libtool: install: ranlib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-ccp4.a libtool: install: /usr/bin/install -c cns/.libs/libclipper-cns.a /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cns.a libtool: install: chmod 644 /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cns.a libtool: install: ranlib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cns.a libtool: install: /usr/bin/install -c fortran/.libs/libclipper-fortran.a /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-fortran.a libtool: install: chmod 644 /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-fortran.a libtool: install: ranlib /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-fortran.a libtool: install: warning: remember to run `libtool --finish /sw/lib' ../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/ccp4' /usr/bin/install -c -m 644 ccp4/ccp4_map_io.h ccp4/ccp4_mtz_io.h ccp4/ccp4_mtz_types.h ccp4/ccp4_utils.h '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/ccp4' ../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/cif' /usr/bin/install -c -m 644 cif/cif_data_io.h '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/cif' ../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/cns' /usr/bin/install -c -m 644 cns/cns_hkl_io.h cns/cns_map_io.h '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/cns' ../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/minimol' /usr/bin/install -c -m 644 minimol/container_minimol.h minimol/minimol_data.h minimol/minimol_seq.h minimol/minimol.h minimol/minimol_io.h minimol/minimol_utils.h '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/minimol' ../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/mmdb' /usr/bin/install -c -m 644 mmdb/clipper_mmdb.h '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/mmdb' ../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/phs' /usr/bin/install -c -m 644 phs/phs_io.h '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper/phs' ../build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper' /usr/bin/install -c -m 644 clipper-ccp4.h clipper-contrib.h clipper-phs.h clipper-cctbx.h clipper-minimol.h clipper.h clipper-cif.h clipper-mmdb.h minimal-clipper-hkl.h clipper-cns.h clipper-mmdbold.h minimal-clipper-map.h '/sw/build.build/root-clipper-2.1.20130601-103/sw/include/clipper' make[2]: Nothing to be done for `install-exec-am'. build-aux/install-sh -c -d '/sw/build.build/root-clipper-2.1.20130601-103/sw/lib/pkgconfig' /usr/bin/install -c -m 644 clipper.pc '/sw/build.build/root-clipper-2.1.20130601-103/sw/lib/pkgconfig' sudo -u fink-bld [ENV] sh -c /tmp/fink.rxaXs /usr/bin/install -d -m 700 /sw/build.build/root-clipper-2.1.20130601-103/sw/share/doc/clipper /bin/cp -r README /sw/build.build/root-clipper-2.1.20130601-103/sw/share/doc/clipper/ /bin/cp -r AUTHORS /sw/build.build/root-clipper-2.1.20130601-103/sw/share/doc/clipper/ /bin/cp -r COPYING /sw/build.build/root-clipper-2.1.20130601-103/sw/share/doc/clipper/ /bin/cp -r ChangeLog /sw/build.build/root-clipper-2.1.20130601-103/sw/share/doc/clipper/ /bin/chmod -R go=u-w /sw/build.build/root-clipper-2.1.20130601-103/sw/share/doc/clipper /bin/rm -f /sw/build.build/root-clipper-2.1.20130601-103/sw/info/dir /sw/build.build/root-clipper-2.1.20130601-103/sw/info/dir.old /sw/build.build/root-clipper-2.1.20130601-103/sw/share/info/dir /sw/build.build/root-clipper-2.1.20130601-103/sw/share/info/dir.old /bin/rm -rf /sw/build.build/root-clipper-shlibs-2.1.20130601-103 /bin/mkdir -p /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw /bin/mkdir -p /sw/build.build/root-clipper-shlibs-2.1.20130601-103/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-clipper-shlibs-2.1.20130601-103 sudo -u fink-bld [ENV] sh -c /tmp/fink.8GL_T /usr/bin/install -d -m 755 /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/lib /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-ccp4.2.*dylib /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cif.2.*dylib /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cns.2.*dylib /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-contrib.2.*dylib /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-core.2.*dylib /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-minimol.2.*dylib /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-mmdb.2.*dylib /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-phs.2.*dylib /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-fortran.2.*dylib /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/lib/ /bin/rm -f /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/info/dir /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/info/dir.old /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/share/info/dir /sw/build.build/root-clipper-shlibs-2.1.20130601-103/sw/share/info/dir.old /bin/rm -rf /sw/build.build/root-clipper-dev-2.1.20130601-103 /bin/mkdir -p /sw/build.build/root-clipper-dev-2.1.20130601-103/sw /bin/mkdir -p /sw/build.build/root-clipper-dev-2.1.20130601-103/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-clipper-dev-2.1.20130601-103 sudo -u fink-bld [ENV] sh -c /tmp/fink.ip7UH /usr/bin/install -d -m 755 /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/*.a /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/*.la /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-ccp4.dylib /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cif.dylib /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-cns.dylib /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-contrib.dylib /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-core.dylib /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-minimol.dylib /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-mmdb.dylib /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-phs.dylib /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/lib/libclipper-fortran.dylib /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/lib/ /usr/bin/install -d -m 755 /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/include /bin/mv /sw/build.build/root-clipper-2.1.20130601-103/sw/include/* /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/include/ /bin/rm -f /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/info/dir /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/info/dir.old /sw/build.build/root-clipper-dev-2.1.20130601-103/sw/share/info/dir /sw/build.build/root-clipper-dev-2.1.20130601-103/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-clipper-2.1.20130601-103 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `clipper' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/clipper_2.1.20130601-103_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-clipper-shlibs-2.1.20130601-103 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `clipper-shlibs' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/clipper-shlibs_2.1.20130601-103_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-clipper-dev-2.1.20130601-103 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `clipper-dev' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/clipper-dev_2.1.20130601-103_darwin-x86_64.deb'. Removing runtime build-lock... Removing build-lock package... /sw/bin/dpkg-lockwait -r fink-buildlock-clipper-2.1.20130601-103 (Reading database ... 10154 files and directories currently installed.) Removing fink-buildlock-clipper-2.1.20130601-103 ...