printf ' ' | fink --no-use-binary-dist --yes --build-as-nobody rebuild eden 2>&1 The package 'eden' will be built without being installed. Reading build dependency for eden-5.3-10... Reading dependency for eden-5.3-10... Reading build conflict for eden-5.3-10... 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 'gsl' will be installed. Reading dependency for gsl-1.16-1... Reading runtime dependency for gsl-1.16-1... The package 'fftw' will be installed. Reading dependency for fftw-2.1.5-1119... Reading runtime dependency for fftw-2.1.5-1119... The package '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 'grace' will be installed. Reading dependency for grace-5.1.23-3... Reading runtime dependency for grace-5.1.23-3... The package 'gsl-shlibs' will be installed. Reading dependency for gsl-shlibs-1.16-1... Reading runtime dependency for gsl-shlibs-1.16-1... The package '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 'libjpeg9-shlibs' will be installed. Reading dependency for libjpeg9-shlibs-9a-1... Reading runtime dependency for libjpeg9-shlibs-9a-1... The package 'libpng16-shlibs' will be installed. Reading dependency for libpng16-shlibs-1.6.12-1... Reading runtime dependency for libpng16-shlibs-1.6.12-1... The package 'netcdf-c7-shlibs' will be installed. Reading dependency for netcdf-c7-shlibs-4.3.2-2... Reading runtime dependency for netcdf-c7-shlibs-4.3.2-2... The package 'openmotif4-shlibs' will be installed. Reading dependency for openmotif4-shlibs-2.3.4-6... Reading runtime dependency for openmotif4-shlibs-2.3.4-6... The package 'pdflib6-shlibs' will be installed. Reading dependency for pdflib6-shlibs-7.0.5p3-1... Reading runtime dependency for pdflib6-shlibs-7.0.5p3-1... The package 't1lib5-nox-shlibs' will be installed. Reading dependency for t1lib5-nox-shlibs-5.1.2-2... Reading runtime dependency for t1lib5-nox-shlibs-5.1.2-2... The package 'xbae-shlibs' will be installed. Reading dependency for xbae-shlibs-4.60.4-4... Reading runtime dependency for xbae-shlibs-4.60.4-4... The package 'hdf5.8-shlibs' will be installed. Reading dependency for hdf5.8-shlibs-1.8.13-1... Reading runtime dependency for hdf5.8-shlibs-1.8.13-1... The package 'libcurl4-shlibs' will be installed. Reading dependency for libcurl4-shlibs-7.37.1-1+10.8... Reading runtime dependency for libcurl4-shlibs-7.37.1-1+10.8... The package 'fontconfig2-shlibs' will be installed. Reading dependency for fontconfig2-shlibs-2.10.2-1... Reading runtime dependency for fontconfig2-shlibs-2.10.2-1... The package 'freetype219-shlibs' will be installed. Reading dependency for freetype219-shlibs-2.4.12-1... Reading runtime dependency for freetype219-shlibs-2.4.12-1... The package 'xft2-shlibs' will be installed. Reading dependency for xft2-shlibs-2.2.0-3... Reading runtime dependency for xft2-shlibs-2.2.0-3... The package 'szip-shlibs' will be installed. Reading dependency for szip-shlibs-2.1-3... Reading runtime dependency for szip-shlibs-2.1-3... The package 'librtmp-shlibs' will be installed. Reading dependency for librtmp-shlibs-2.3-4... Reading runtime dependency for librtmp-shlibs-2.3-4... The package 'libssh2.1-shlibs' will be installed. Reading dependency for libssh2.1-shlibs-1.4.3-1... Reading runtime dependency for libssh2.1-shlibs-1.4.3-1... The package 'fontconfig-config' will be installed. Reading dependency for fontconfig-config-2.10.2-1... Reading runtime dependency for fontconfig-config-2.10.2-1... The package '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 'openssl100-shlibs' will be installed. Reading dependency for openssl100-shlibs-1.0.1h-1... Reading runtime dependency for openssl100-shlibs-1.0.1h-1... The following package will be rebuilt: eden The following 24 additional packages will be installed: expat1-shlibs fftw fftw-shlibs fontconfig-config fontconfig2-shlibs freetype219-shlibs gcc48-shlibs grace gsl gsl-shlibs hdf5.8-shlibs libcurl4-shlibs libjpeg9-shlibs libpng16-shlibs librtmp-shlibs libssh2.1-shlibs netcdf-c7-shlibs openmotif4-shlibs openssl100-shlibs pdflib6-shlibs szip-shlibs t1lib5-nox-shlibs xbae-shlibs xft2-shlibs Do you want to continue? [Y/n] (assuming default) curl --connect-timeout 30 -f -L -A 'fink/0.37.0' -O http://distfiles.master.finkmirrors.net/distfiles/eden-5.3.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 27 1113k 27 306k 0 0 362k 0 0:00:03 --:--:-- 0:00:03 361k 100 1113k 100 1113k 0 0 656k 0 0:00:01 0:00:01 --:--:-- 656k 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 ... 4296 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/dists/stable/main/binary-darwin-x86_64/graphics/freetype219-shlibs_2.4.12-1_darwin-x86_64.deb Selecting previously deselected package freetype219-shlibs. (Reading database ... 4301 files and directories currently installed.) Unpacking freetype219-shlibs (from .../freetype219-shlibs_2.4.12-1_darwin-x86_64.deb) ... Setting up freetype219-shlibs (2.4.12-1) ... 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 ... 4312 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/debs/gsl_1.16-1_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/gsl-shlibs_1.16-1_darwin-x86_64.deb Selecting previously deselected package gsl. (Reading database ... 4353 files and directories currently installed.) Unpacking gsl (from .../gsl_1.16-1_darwin-x86_64.deb) ... Selecting previously deselected package gsl-shlibs. Unpacking gsl-shlibs (from .../gsl-shlibs_1.16-1_darwin-x86_64.deb) ... Setting up gsl-shlibs (1.16-1) ... Setting up gsl (1.16-1) ... Clearing dependency_libs of .la files being installed * gsl-ref: (gsl-ref). GNU Scientific Library - Reference install-info(/sw/share/info/gsl-ref.info): creating new section `Software libraries' Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/graphics/libjpeg9-shlibs_9a-1_darwin-x86_64.deb Selecting previously deselected package libjpeg9-shlibs. (Reading database ... 4603 files and directories currently installed.) Unpacking libjpeg9-shlibs (from .../libjpeg9-shlibs_9a-1_darwin-x86_64.deb) ... Setting up libjpeg9-shlibs (9a-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/graphics/libpng16-shlibs_1.6.12-1_darwin-x86_64.deb Selecting previously deselected package libpng16-shlibs. (Reading database ... 4606 files and directories currently installed.) Unpacking libpng16-shlibs (from .../libpng16-shlibs_1.6.12-1_darwin-x86_64.deb) ... Setting up libpng16-shlibs (1.6.12-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/base/openssl100-shlibs_1.0.1h-1_darwin-x86_64.deb Selecting previously deselected package openssl100-shlibs. (Reading database ... 4614 files and directories currently installed.) Unpacking openssl100-shlibs (from .../openssl100-shlibs_1.0.1h-1_darwin-x86_64.deb) ... Setting up openssl100-shlibs (1.0.1h-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/graphics/pdflib6-shlibs_7.0.5p3-1_darwin-x86_64.deb Selecting previously deselected package pdflib6-shlibs. (Reading database ... 4635 files and directories currently installed.) Unpacking pdflib6-shlibs (from .../pdflib6-shlibs_7.0.5p3-1_darwin-x86_64.deb) ... Setting up pdflib6-shlibs (7.0.5p3-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/libs/szip-shlibs_2.1-3_darwin-x86_64.deb Selecting previously deselected package szip-shlibs. (Reading database ... 4647 files and directories currently installed.) Unpacking szip-shlibs (from .../szip-shlibs_2.1-3_darwin-x86_64.deb) ... Setting up szip-shlibs (2.1-3) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/graphics/t1lib5-nox-shlibs_5.1.2-2_darwin-x86_64.deb Selecting previously deselected package t1lib5-nox-shlibs. (Reading database ... 4653 files and directories currently installed.) Unpacking t1lib5-nox-shlibs (from .../t1lib5-nox-shlibs_5.1.2-2_darwin-x86_64.deb) ... Setting up t1lib5-nox-shlibs (5.1.2-2) ... 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 ... 4659 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/x11/fontconfig2-shlibs_2.10.2-1_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/x11/fontconfig-config_2.10.2-1_darwin-x86_64.deb Selecting previously deselected package fontconfig2-shlibs. (Reading database ... 4728 files and directories currently installed.) Unpacking fontconfig2-shlibs (from .../fontconfig2-shlibs_2.10.2-1_darwin-x86_64.deb) ... Selecting previously deselected package fontconfig-config. Unpacking fontconfig-config (from .../fontconfig-config_2.10.2-1_darwin-x86_64.deb) ... Setting up fontconfig-config (2.10.2-1) ... Setting up fontconfig2-shlibs (2.10.2-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/hdf5.8-shlibs_1.8.13-1_darwin-x86_64.deb Selecting previously deselected package hdf5.8-shlibs. (Reading database ... 4813 files and directories currently installed.) Unpacking hdf5.8-shlibs (from .../hdf5.8-shlibs_1.8.13-1_darwin-x86_64.deb) ... Setting up hdf5.8-shlibs (1.8.13-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/net/librtmp-shlibs_2.3-4_darwin-x86_64.deb Selecting previously deselected package librtmp-shlibs. (Reading database ... 4823 files and directories currently installed.) Unpacking librtmp-shlibs (from .../librtmp-shlibs_2.3-4_darwin-x86_64.deb) ... Setting up librtmp-shlibs (2.3-4) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/net/libssh2.1-shlibs_1.4.3-1_darwin-x86_64.deb Selecting previously deselected package libssh2.1-shlibs. (Reading database ... 4828 files and directories currently installed.) Unpacking libssh2.1-shlibs (from .../libssh2.1-shlibs_1.4.3-1_darwin-x86_64.deb) ... Setting up libssh2.1-shlibs (1.4.3-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/x11/xft2-shlibs_2.2.0-3_darwin-x86_64.deb Selecting previously deselected package xft2-shlibs. (Reading database ... 4836 files and directories currently installed.) Unpacking xft2-shlibs (from .../xft2-shlibs_2.2.0-3_darwin-x86_64.deb) ... Setting up xft2-shlibs (2.2.0-3) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/net/libcurl4-shlibs_7.37.1-1+10.8_darwin-x86_64.deb Selecting previously deselected package libcurl4-shlibs. (Reading database ... 4845 files and directories currently installed.) Unpacking libcurl4-shlibs (from .../libcurl4-shlibs_7.37.1-1+10.8_darwin-x86_64.deb) ... Setting up libcurl4-shlibs (7.37.1-1+10.8) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/netcdf-c7-shlibs_4.3.2-2_darwin-x86_64.deb Selecting previously deselected package netcdf-c7-shlibs. (Reading database ... 4851 files and directories currently installed.) Unpacking netcdf-c7-shlibs (from .../netcdf-c7-shlibs_4.3.2-2_darwin-x86_64.deb) ... Setting up netcdf-c7-shlibs (4.3.2-2) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/x11/openmotif4-shlibs_2.3.4-6_darwin-x86_64.deb Selecting previously deselected package openmotif4-shlibs. (Reading database ... 4856 files and directories currently installed.) Unpacking openmotif4-shlibs (from .../openmotif4-shlibs_2.3.4-6_darwin-x86_64.deb) ... Setting up openmotif4-shlibs (2.3.4-6) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/x11/xbae-shlibs_4.60.4-4_darwin-x86_64.deb Selecting previously deselected package xbae-shlibs. (Reading database ... 4861 files and directories currently installed.) Unpacking xbae-shlibs (from .../xbae-shlibs_4.60.4-4_darwin-x86_64.deb) ... Setting up xbae-shlibs (4.60.4-4) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/grace_5.1.23-3_darwin-x86_64.deb Selecting previously deselected package grace. (Reading database ... 4869 files and directories currently installed.) Unpacking grace (from .../grace_5.1.23-3_darwin-x86_64.deb) ... Setting up grace (5.1.23-3) ... Setting runtime build-lock... dpkg-deb -b /sw/build.build/root-fink-buildlock-eden-5.3-10 /sw/build.build dpkg-deb: building package `fink-buildlock-eden-5.3-10' in `/sw/build.build/fink-buildlock-eden-5.3-10_2014.07.31-05.04.36_darwin-x86_64.deb'. Installing build-lock package... /sw/bin/dpkg-lockwait -i /sw/build.build/fink-buildlock-eden-5.3-10_2014.07.31-05.04.36_darwin-x86_64.deb Selecting previously deselected package fink-buildlock-eden-5.3-10. (Reading database ... 5031 files and directories currently installed.) Unpacking fink-buildlock-eden-5.3-10 (from .../fink-buildlock-eden-5.3-10_2014.07.31-05.04.36_darwin-x86_64.deb) ... Setting up fink-buildlock-eden-5.3-10 (2014.07.31-05.04.36) ... sudo -u fink-bld [ENV] sh -c /tmp/fink.jQVfu env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/eden-5.3.tar.gz eden/ eden/example/ eden/example/apodize/ eden/example/apodize/apo.inp eden/example/apodize/awkit eden/example/apodize/F000 eden/example/apodize/fcalc_script eden/example/apodize/fobs_script eden/example/back/ eden/example/back/par.inp eden/example/originals/ eden/example/originals/cramb2m.fo.gz eden/example/originals/fullcramb.pdb.gz eden/example/originals/start.fc.gz eden/example/README eden/example/solve/ eden/example/solve/floor.inp eden/help/ eden/help/addmaps.hlp eden/help/addmaps.inf eden/help/apodfc.hlp eden/help/apodfc.inf eden/help/apodfo.hlp eden/help/apodfo.inf eden/help/back.hlp eden/help/back.inf eden/help/bin2map.hlp eden/help/bin2map.inf eden/help/cadhkl.hlp eden/help/cadhkl.inf eden/help/count.hlp eden/help/count.inf eden/help/distance.hlp eden/help/distance.inf eden/help/dphase.hlp eden/help/dphase.inf eden/help/drho.inf eden/help/eden.inf eden/help/expandfc.hlp eden/help/expandfc.inf eden/help/expandfo.hlp eden/help/expandfo.inf eden/help/forth.hlp eden/help/forth.inf eden/help/keywords.hlp eden/help/keywords.inf eden/help/lookat eden/help/maketar.hlp eden/help/maketar.inf eden/help/map2bin.hlp eden/help/map2bin.inf eden/help/mismatches.hlp eden/help/mkhtml.pl eden/help/multmaps.hlp eden/help/multmaps.inf eden/help/news.hlp eden/help/news.inf eden/help/perturbhkl.hlp eden/help/perturbhkl.inf eden/help/ranphase.hlp eden/help/ranphase.inf eden/help/record.hlp eden/help/refine.hlp eden/help/refine.inf eden/help/regrid.hlp eden/help/regrid.inf eden/help/robust.hlp eden/help/setupncs.inf eden/help/shapes.hlp eden/help/shapes.inf eden/help/solve.hlp eden/help/solve.inf eden/help/solvent_targets.hlp eden/help/switches.hlp eden/help/switches.inf eden/help/sym.hlp eden/help/sym.inf eden/help/tohu.hlp eden/help/tohu.inf eden/help/variance.hlp eden/help/variance.inf eden/manual/ eden/manual/hfill.ist eden/manual/Makefile eden/manual/UserManual.pdf eden/manual/UserManual.tex eden/python/ eden/python/default.inp eden/python/eden.py eden/python/FileListDialog.py eden/python/ieden.gif eden/python/tyr1.gif eden/python/tyr2.gif eden/source/ eden/source/addmaps.c eden/source/apodfc.c eden/source/apodfo.c eden/source/apodize.h eden/source/apodutil.c eden/source/atomsf.lib eden/source/back.c eden/source/basics.c eden/source/cadhkl.c eden/source/calc_rho.c eden/source/calc_rho.h eden/source/ccg.c eden/source/ccg.h eden/source/ccgutil.c eden/source/cellparams.h eden/source/concosts.c eden/source/convert.c eden/source/cost.c eden/source/cost.h eden/source/count.c eden/source/crysutil.c eden/source/dims.h eden/source/distance.c eden/source/dphase.c eden/source/eden.c eden/source/eden.h eden/source/eden_Np.h eden/source/expandfc.c eden/source/expandfo.c eden/source/fbyteswap.c eden/source/fftwshare.c eden/source/forth.c eden/source/highres.c eden/source/hklinit.c eden/source/hklread.c eden/source/hklutil.c eden/source/init.c eden/source/Makefile eden/source/maketar.c eden/source/mir.h eden/source/mkeden.csh eden/source/pdb.h eden/source/pdbutil.c eden/source/perturbhkl.c eden/source/qshare.c eden/source/ranphase.c eden/source/README eden/source/refine.c eden/source/refine.h eden/source/reg.h eden/source/regrid.c eden/source/regutil.c eden/source/remap.c eden/source/remap.h eden/source/shapes.c eden/source/solve.c eden/source/ssetup.c eden/source/sym.c eden/source/symmetry.h eden/source/symop.lib eden/source/tohu.c eden/source/util.c eden/source/util.h eden/source/V4.3_revs eden/source/V4.4_revs eden/source/V5.0_revs eden/source/V5.1_revs eden/source/V5.2_revs eden/source/V5.3_revs eden/source/variance.c eden/source/w0_d eden/tools/ eden/tools/avscript eden/tools/awk_hkl_to_xplor eden/tools/awk_pdb eden/tools/awk_xplor_to_xtal eden/tools/comparem eden/tools/count_script eden/tools/doit eden/tools/myjoin eden/tools/perturb_script eden/tools/quick_eden eden/tools/stab_script sudo -u fink-bld [ENV] sh -c /tmp/fink.E1IxC [ -r /sw/fink/dists/stable/main/finkinfo/sci/eden.patch ] sudo -u fink-bld [ENV] sh -c /tmp/fink.8SLic patch -p1 < /sw/fink/dists/stable/main/finkinfo/sci/eden.patch patching file source/Makefile perl -pi -e 's|/swprefix|/sw|g' source/Makefile perl -pi -e 's|/swinstallprefix|/sw/build.build/root-eden-5.3-10/sw|g' source/Makefile perl -pi -e 's|/swprefix|/sw|g' python/eden.py perl -pi -e 's|mozilla|open|g' python/eden.py sudo -u fink-bld [ENV] sh -c /tmp/fink.tkY4h /tmp/fink.1pZYu #!/bin/bash -ve if [[ $( sw_vers -productVersion ) < 10.6 ]];then PATH=/usr/bin:$PATH else PATH=/sw/var/lib/fink/path-prefix-10.6:/usr/bin:$PATH fi sw_vers -productVersion cd source make cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c eden.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c addmaps.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c apodfc.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c apodfo.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c back.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c cadhkl.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c convert.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c count.c back.c:115:25: warning: format string is not a string literal (potentially insecure) [-Wformat-security] sprintf(sf_filename, argv[optind+2]) ; ^~~~~~~~~~~~~~ /usr/include/secure/_stdio.h:47:56: note: expanded from macro 'sprintf' __builtin___sprintf_chk (str, 0, __darwin_obsz(str), __VA_ARGS__) ^ count.c:463:18: warning: format string is not a string literal (potentially insecure) [-Wformat-security] fprintf(fp, message) ; ^~~~~~~ count.c:468:18: warning: format string is not a string literal (potentially insecure) [-Wformat-security] fprintf(fp, message) ; ^~~~~~~ eden.c:322:28: warning: format string is not a string literal (potentially insecure) [-Wformat-security] sprintf(command_line, argv[0]) ; ^~~~~~~ /usr/include/secure/_stdio.h:47:56: note: expanded from macro 'sprintf' __builtin___sprintf_chk (str, 0, __darwin_obsz(str), __VA_ARGS__) ^ cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c distance.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c dphase.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c expandfc.c 1 warning generated. 1 warning generated. cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c expandfo.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c forth.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c maketar.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c perturbhkl.c 2 warnings generated. cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c ranphase.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c refine.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c regrid.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c shapes.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c solve.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c sym.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c tohu.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c variance.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c apodutil.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c basics.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c calc_rho.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c ccg.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c ccgutil.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c concosts.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c cost.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c crysutil.c concosts.c:455:39: warning: format string is not a string literal (potentially insecure) [-Wformat-security] fprintf(fp_log, message) ; ^~~~~~~ concosts.c:559:20: warning: format string is not a string literal (potentially insecure) [-Wformat-security] fprintf(fp_log, message) ; ^~~~~~~ cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c fftwshare.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c highres.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c hklinit.c 2 warnings generated. cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c hklread.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c hklutil.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c init.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c pdbutil.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c qshare.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c regutil.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c remap.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c ssetup.c cc -Wall -pipe -g3 -I/sw/include -DDOUBLE -c util.c cc -o fbyteswap fbyteswap.c fbyteswap.c:78:1: warning: type specifier missing, defaults to 'int' [-Wimplicit-int] main (int argc, char **argv) { ^~~~ fbyteswap.c:96:10: warning: implicit declaration of function 'read' is invalid in C99 [-Wimplicit-function-declaration] n_read=read(ifile, x, BUFSIZE) ; ^ fbyteswap.c:102:12: warning: implicit declaration of function 'write' is invalid in C99 [-Wimplicit-function-declaration] n_wrtn=write(ofile, x, BUFSIZE); ^ fbyteswap.c:119:3: warning: implicit declaration of function 'close' is invalid in C99 [-Wimplicit-function-declaration] close(ofile); ^ 4 warnings generated. util.c:269:21: warning: format string is not a string literal (potentially insecure) [-Wformat-security] fprintf(stdout, mess) ; ^~~~ util.c:725:38: warning: format string is not a string literal (potentially insecure) [-Wformat-security] rec_length += sprintf(record+k, timestamp()) ; ^~~~~~~~~~~ /usr/include/secure/_stdio.h:47:56: note: expanded from macro 'sprintf' __builtin___sprintf_chk (str, 0, __darwin_obsz(str), __VA_ARGS__) ^ 2 warnings generated. cc eden.o addmaps.o apodfc.o apodfo.o back.o cadhkl.o convert.o count.o distance.o dphase.o expandfc.o expandfo.o forth.o maketar.o perturbhkl.o ranphase.o refine.o regrid.o shapes.o solve.o sym.o tohu.o variance.o apodutil.o basics.o calc_rho.o ccg.o ccgutil.o concosts.o cost.o crysutil.o fftwshare.o highres.o hklinit.o hklread.o hklutil.o init.o pdbutil.o qshare.o regutil.o remap.o ssetup.o util.o -L/sw/lib -ldfftw -lm -g -lgsl -lgslcblas -o eden /bin/rm -rf /sw/build.build/root-eden-5.3-10 /bin/mkdir -p /sw/build.build/root-eden-5.3-10/sw /bin/mkdir -p /sw/build.build/root-eden-5.3-10/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-eden-5.3-10 sudo -u fink-bld [ENV] sh -c /tmp/fink.gnV9d /tmp/fink.NN7ZS #!/bin/bash -ve if [[ $( sw_vers -productVersion ) < 10.6 ]];then PATH=/usr/bin:$PATH else PATH=/sw/var/lib/fink/path-prefix-10.6:/usr/bin:$PATH fi sw_vers -productVersion mkdir -p /sw/build.build/root-eden-5.3-10/sw/bin cd source make install cp fbyteswap /sw/build.build/root-eden-5.3-10/sw/bin cp eden /sw/build.build/root-eden-5.3-10/sw/bin/deden chmod 751 /sw/build.build/root-eden-5.3-10/sw/bin/deden chmod +x mkeden.csh ./mkeden.csh /sw/build.build/root-eden-5.3-10/sw/bin /sw/build.build/root-eden-5.3-10/sw/bin/deden make clean rm -f eden eden.o addmaps.o apodfc.o apodfo.o back.o cadhkl.o convert.o count.o distance.o dphase.o expandfc.o expandfo.o forth.o maketar.o perturbhkl.o ranphase.o refine.o regrid.o shapes.o solve.o sym.o tohu.o variance.o apodutil.o basics.o calc_rho.o ccg.o ccgutil.o concosts.o cost.o crysutil.o fftwshare.o highres.o hklinit.o hklread.o hklutil.o init.o pdbutil.o qshare.o regutil.o remap.o ssetup.o util.o perl -pi -e 's|DOUBLESWITCH = ON|DOUBLESWITCH = OFF|g' Makefile make cc -Wall -pipe -g3 -I/sw/include -c eden.c eden.c:322:28: warning: format string is not a string literal (potentially insecure) [-Wformat-security] sprintf(command_line, argv[0]) ; ^~~~~~~ /usr/include/secure/_stdio.h:47:56: note: expanded from macro 'sprintf' __builtin___sprintf_chk (str, 0, __darwin_obsz(str), __VA_ARGS__) ^ 1 warning generated. cc -Wall -pipe -g3 -I/sw/include -c addmaps.c cc -Wall -pipe -g3 -I/sw/include -c apodfc.c cc -Wall -pipe -g3 -I/sw/include -c apodfo.c cc -Wall -pipe -g3 -I/sw/include -c back.c back.c:115:25: warning: format string is not a string literal (potentially insecure) [-Wformat-security] sprintf(sf_filename, argv[optind+2]) ; ^~~~~~~~~~~~~~ /usr/include/secure/_stdio.h:47:56: note: expanded from macro 'sprintf' __builtin___sprintf_chk (str, 0, __darwin_obsz(str), __VA_ARGS__) ^ 1 warning generated. cc -Wall -pipe -g3 -I/sw/include -c cadhkl.c cc -Wall -pipe -g3 -I/sw/include -c convert.c cc -Wall -pipe -g3 -I/sw/include -c count.c count.c:463:18: warning: format string is not a string literal (potentially insecure) [-Wformat-security] fprintf(fp, message) ; ^~~~~~~ count.c:468:18: warning: format string is not a string literal (potentially insecure) [-Wformat-security] fprintf(fp, message) ; ^~~~~~~ 2 warnings generated. cc -Wall -pipe -g3 -I/sw/include -c distance.c cc -Wall -pipe -g3 -I/sw/include -c dphase.c cc -Wall -pipe -g3 -I/sw/include -c expandfc.c cc -Wall -pipe -g3 -I/sw/include -c expandfo.c cc -Wall -pipe -g3 -I/sw/include -c forth.c cc -Wall -pipe -g3 -I/sw/include -c maketar.c cc -Wall -pipe -g3 -I/sw/include -c perturbhkl.c cc -Wall -pipe -g3 -I/sw/include -c ranphase.c cc -Wall -pipe -g3 -I/sw/include -c refine.c cc -Wall -pipe -g3 -I/sw/include -c regrid.c cc -Wall -pipe -g3 -I/sw/include -c shapes.c cc -Wall -pipe -g3 -I/sw/include -c solve.c cc -Wall -pipe -g3 -I/sw/include -c sym.c cc -Wall -pipe -g3 -I/sw/include -c tohu.c cc -Wall -pipe -g3 -I/sw/include -c variance.c cc -Wall -pipe -g3 -I/sw/include -c apodutil.c cc -Wall -pipe -g3 -I/sw/include -c basics.c cc -Wall -pipe -g3 -I/sw/include -c calc_rho.c cc -Wall -pipe -g3 -I/sw/include -c ccg.c cc -Wall -pipe -g3 -I/sw/include -c ccgutil.c cc -Wall -pipe -g3 -I/sw/include -c concosts.c concosts.c:455:39: warning: format string is not a string literal (potentially insecure) [-Wformat-security] fprintf(fp_log, message) ; ^~~~~~~ concosts.c:559:20: warning: format string is not a string literal (potentially insecure) [-Wformat-security] fprintf(fp_log, message) ; ^~~~~~~ 2 warnings generated. cc -Wall -pipe -g3 -I/sw/include -c cost.c cc -Wall -pipe -g3 -I/sw/include -c crysutil.c cc -Wall -pipe -g3 -I/sw/include -c fftwshare.c cc -Wall -pipe -g3 -I/sw/include -c highres.c cc -Wall -pipe -g3 -I/sw/include -c hklinit.c cc -Wall -pipe -g3 -I/sw/include -c hklread.c cc -Wall -pipe -g3 -I/sw/include -c hklutil.c cc -Wall -pipe -g3 -I/sw/include -c init.c cc -Wall -pipe -g3 -I/sw/include -c pdbutil.c cc -Wall -pipe -g3 -I/sw/include -c qshare.c cc -Wall -pipe -g3 -I/sw/include -c regutil.c cc -Wall -pipe -g3 -I/sw/include -c remap.c cc -Wall -pipe -g3 -I/sw/include -c ssetup.c cc -Wall -pipe -g3 -I/sw/include -c util.c util.c:269:21: warning: format string is not a string literal (potentially insecure) [-Wformat-security] fprintf(stdout, mess) ; ^~~~ util.c:725:38: warning: format string is not a string literal (potentially insecure) [-Wformat-security] rec_length += sprintf(record+k, timestamp()) ; ^~~~~~~~~~~ /usr/include/secure/_stdio.h:47:56: note: expanded from macro 'sprintf' __builtin___sprintf_chk (str, 0, __darwin_obsz(str), __VA_ARGS__) ^ 2 warnings generated. cc eden.o addmaps.o apodfc.o apodfo.o back.o cadhkl.o convert.o count.o distance.o dphase.o expandfc.o expandfo.o forth.o maketar.o perturbhkl.o ranphase.o refine.o regrid.o shapes.o solve.o sym.o tohu.o variance.o apodutil.o basics.o calc_rho.o ccg.o ccgutil.o concosts.o cost.o crysutil.o fftwshare.o highres.o hklinit.o hklread.o hklutil.o init.o pdbutil.o qshare.o regutil.o remap.o ssetup.o util.o -L/sw/lib -lsfftw -lm -g -lgsl -lgslcblas -o eden make install cp fbyteswap /sw/build.build/root-eden-5.3-10/sw/bin cp eden /sw/build.build/root-eden-5.3-10/sw/bin/seden chmod 751 /sw/build.build/root-eden-5.3-10/sw/bin/seden chmod +x mkeden.csh ./mkeden.csh /sw/build.build/root-eden-5.3-10/sw/bin /sw/build.build/root-eden-5.3-10/sw/bin/seden make clean rm -f eden eden.o addmaps.o apodfc.o apodfo.o back.o cadhkl.o convert.o count.o distance.o dphase.o expandfc.o expandfo.o forth.o maketar.o perturbhkl.o ranphase.o refine.o regrid.o shapes.o solve.o sym.o tohu.o variance.o apodutil.o basics.o calc_rho.o ccg.o ccgutil.o concosts.o cost.o crysutil.o fftwshare.o highres.o hklinit.o hklread.o hklutil.o init.o pdbutil.o qshare.o regutil.o remap.o ssetup.o util.o cd .. mkdir -p /sw/build.build/root-eden-5.3-10/sw/share/eden cp -R * /sw/build.build/root-eden-5.3-10/sw/share/eden/. mkdir -p /sw/build.build/root-eden-5.3-10/sw/share/doc/eden cp manual/UserManual.pdf /sw/build.build/root-eden-5.3-10/sw/share/doc/eden/EdenUserManual.pdf rm -f /sw/build.build/root-eden-5.3-10/sw/bin/eden rm -f /sw/build.build/root-eden-5.3-10/sw/bin/ieden ln -s /sw/share/eden/python/eden.py /sw/build.build/root-eden-5.3-10/sw/bin/ieden cp /sw/build.build/root-eden-5.3-10/sw/bin/seden /sw/build.build/root-eden-5.3-10/sw/bin/eden sudo -u fink-bld [ENV] sh -c /tmp/fink.mSZRG /usr/bin/install -d -m 755 /sw/build.build/root-eden-5.3-10/sw/etc/profile.d echo "setenv EDENHOME '/sw/share/eden'" >> /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.csh.env echo "export EDENHOME='/sw/share/eden'" >> /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.sh.env /usr/bin/touch /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.csh /usr/bin/touch /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.sh /bin/cat /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.csh >> /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.csh.env /bin/cat /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.sh >> /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.sh.env /bin/mv -f /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.csh.env /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.csh /bin/mv -f /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.sh.env /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.sh /bin/chmod 755 /sw/build.build/root-eden-5.3-10/sw/etc/profile.d/eden.* /bin/rm -f /sw/build.build/root-eden-5.3-10/sw/info/dir /sw/build.build/root-eden-5.3-10/sw/info/dir.old /sw/build.build/root-eden-5.3-10/sw/share/info/dir /sw/build.build/root-eden-5.3-10/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-eden-5.3-10 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `eden' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/eden_5.3-10_darwin-x86_64.deb'. Removing runtime build-lock... Removing build-lock package... /sw/bin/dpkg-lockwait -r fink-buildlock-eden-5.3-10 (Reading database ... 5032 files and directories currently installed.) Removing fink-buildlock-eden-5.3-10 ...