=> Bootstrap dependency digest>=20010302: found digest-20111104 => Bootstrap dependency fetch-[0-9]*: found fetch-1.7 WARNING: [license.mk] Every package should define a LICENSE. ===> Building for py25-mol-1.4.1nb1 (cd /tmp/pkgsrc/biology/py-mol/work/pymol/ && /usr/bin/env USETOOLS=no PTHREAD_CFLAGS=\ -pthread\ PTHREAD_LDFLAGS=\ -pthread PTHREAD_LIBS=-lpthread\ -lrt PTHREADBASE=/usr DL_CFLAGS= DL_LDFLAGS= DL_LIBS= PYTHON=/usr/pkg/bin/python2.5 CC=gcc CFLAGS=-O3\ -pipe\ -fstack-protector\ -I/usr/pkg/include\ -I/usr/pkg/include/freetype2\ -I/usr/include CPPFLAGS=-I/usr/pkg/include\ -I/usr/pkg/include/freetype2\ -I/usr/include CXX=g++ CXXFLAGS=-O3\ -pipe\ -fstack-protector\ -I/usr/pkg/include\ -I/usr/pkg/include/freetype2\ -I/usr/include COMPILER_RPATH_FLAG=-Wl,-R F77=f77 FC=f77 FFLAGS=-O LANG=C LC_COLLATE=C LC_CTYPE=C LC_MESSAGES=C LC_MONETARY=C LC_NUMERIC=C LC_TIME=C LDFLAGS=-L/usr/pkg/lib\ -Wl,-R/usr/pkg/lib\ -L/usr/lib\ -Wl,-R/usr/lib LINKER_RPATH_FLAG=-R PATH=/tmp/pkgsrc/biology/py-mol/work/.wrapper/bin:/tmp/pkgsrc/biology/py-mol/work/.buildlink/bin:/tmp/pkgsrc/biology/py-mol/work/.gcc/bin:/tmp/pkgsrc/biology/py-mol/work/.tools/bin:/usr/pkg/bin:/bin:/usr/bin:/usr/pkg/bin:/usr/pkg/bin PREFIX=/usr/pkg PKG_SYSCONFDIR=/usr/pkg/etc HOME=/tmp/pkgsrc/biology/py-mol/work/.home CPP=cpp LINK_ALL_LIBGCC_HACK= LOCALBASE=/usr/pkg NO_WHOLE_ARCHIVE_FLAG=-Wl,--no-whole-archive WHOLE_ARCHIVE_FLAG=-Wl,--whole-archive X11BASE=/usr/pkg X11PREFIX=/usr/pkg PKGMANDIR=share/man PKGINFODIR=share/info MAKECONF=/dev/null OBJECT_FMT=ELF USETOOLS=no BSD_INSTALL_PROGRAM=/usr/bin/install\ -c\ -s\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_SCRIPT=/usr/bin/install\ -c\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_LIB=/usr/bin/install\ -c\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_DATA=/usr/bin/install\ -c\ -o\ pbulk\ -g\ pbulk\ -m\ 644 BSD_INSTALL_MAN=/usr/bin/install\ -c\ -o\ pbulk\ -g\ pbulk\ -m\ 644 BSD_INSTALL=/usr/bin/install BSD_INSTALL_PROGRAM_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_SCRIPT_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_LIB_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_DATA_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_MAN_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_GAME=/usr/bin/install\ -c\ -s\ -o\ pbulk\ -g\ pbulk\ -m\ 2555 BSD_INSTALL_GAME_DATA=/usr/bin/install\ -c\ -o\ pbulk\ -g\ pbulk\ -m\ 664 BSD_INSTALL_GAME_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 775 INSTALL_INFO= MAKEINFO=/tmp/pkgsrc/biology/py-mol/work/.tools/bin/makeinfo FLEX= BISON= PKG_CONFIG= PKG_CONFIG_LIBDIR=/tmp/pkgsrc/biology/py-mol/work/.buildlink/lib/pkgconfig:/tmp/pkgsrc/biology/py-mol/work/.buildlink/share/pkgconfig PKG_CONFIG_LOG=/tmp/pkgsrc/biology/py-mol/work/.pkg-config.log PKG_CONFIG_PATH= WRAPPER_DEBUG=no WRAPPER_UPDATE_CACHE=yes VIEWBASE=/usr/pkg /usr/pkg/bin/python2.5 setup.py build ) running build running build_py creating build creating build/lib.linux-x86_64-2.5 creating build/lib.linux-x86_64-2.5/chempy copying modules/chempy/models.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/protein_mmff.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/place.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/brick.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/protein_residues.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/gms.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/protein_amber99.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/bond_mmff.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/water_amber.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/cpv.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/io.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/pkl.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/pdb.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/lst.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/cex.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/xyz.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/mae.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/__init__.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/mol2.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/sdf.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/cif.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/bond_amber.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/cc1.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/mmd.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/charge.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/map.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/dictdb.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/protein.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/mol.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/hetatm.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/mass.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/neighbor.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/protein_amber.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/solvate.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/gamess1.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/water_residues.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/bonds.py -> build/lib.linux-x86_64-2.5/chempy copying modules/chempy/arc.py -> build/lib.linux-x86_64-2.5/chempy creating build/lib.linux-x86_64-2.5/chempy/bmin copying modules/chempy/bmin/__init__.py -> build/lib.linux-x86_64-2.5/chempy/bmin copying modules/chempy/bmin/util.py -> build/lib.linux-x86_64-2.5/chempy/bmin copying modules/chempy/bmin/state.py -> build/lib.linux-x86_64-2.5/chempy/bmin copying modules/chempy/bmin/realtime.py -> build/lib.linux-x86_64-2.5/chempy/bmin copying modules/chempy/bmin/commands.py -> build/lib.linux-x86_64-2.5/chempy/bmin creating build/lib.linux-x86_64-2.5/chempy/champ copying modules/chempy/champ/formal_charges.py -> build/lib.linux-x86_64-2.5/chempy/champ copying modules/chempy/champ/__init__.py -> build/lib.linux-x86_64-2.5/chempy/champ copying modules/chempy/champ/assign.py -> build/lib.linux-x86_64-2.5/chempy/champ copying modules/chempy/champ/amber99.py -> build/lib.linux-x86_64-2.5/chempy/champ creating build/lib.linux-x86_64-2.5/chempy/fast copying modules/chempy/fast/__init__.py -> build/lib.linux-x86_64-2.5/chempy/fast creating build/lib.linux-x86_64-2.5/chempy/fragments copying modules/chempy/fragments/__init__.py -> build/lib.linux-x86_64-2.5/chempy/fragments creating build/lib.linux-x86_64-2.5/chempy/tinker copying modules/chempy/tinker/amber.py -> build/lib.linux-x86_64-2.5/chempy/tinker copying modules/chempy/tinker/keyword.py -> build/lib.linux-x86_64-2.5/chempy/tinker copying modules/chempy/tinker/__init__.py -> build/lib.linux-x86_64-2.5/chempy/tinker copying modules/chempy/tinker/state.py -> build/lib.linux-x86_64-2.5/chempy/tinker copying modules/chempy/tinker/realtime.py -> build/lib.linux-x86_64-2.5/chempy/tinker creating build/lib.linux-x86_64-2.5/pmg_tk copying modules/pmg_tk/Setting.py -> build/lib.linux-x86_64-2.5/pmg_tk copying modules/pmg_tk/Demo.py -> build/lib.linux-x86_64-2.5/pmg_tk copying modules/pmg_tk/ColorEditor.py -> build/lib.linux-x86_64-2.5/pmg_tk copying modules/pmg_tk/__init__.py -> build/lib.linux-x86_64-2.5/pmg_tk copying modules/pmg_tk/SetEditor.py -> build/lib.linux-x86_64-2.5/pmg_tk copying modules/pmg_tk/PMGApp.py -> build/lib.linux-x86_64-2.5/pmg_tk creating build/lib.linux-x86_64-2.5/pmg_tk/startup copying modules/pmg_tk/startup/__init__.py -> build/lib.linux-x86_64-2.5/pmg_tk/startup copying modules/pmg_tk/startup/remote_pdb_load.py -> build/lib.linux-x86_64-2.5/pmg_tk/startup copying modules/pmg_tk/startup/apbs_tools.py -> build/lib.linux-x86_64-2.5/pmg_tk/startup creating build/lib.linux-x86_64-2.5/pmg_tk/skins copying modules/pmg_tk/skins/__init__.py -> build/lib.linux-x86_64-2.5/pmg_tk/skins creating build/lib.linux-x86_64-2.5/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/ModalWindow.py -> build/lib.linux-x86_64-2.5/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/ColorMap.py -> build/lib.linux-x86_64-2.5/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/ColorRampModel.py -> build/lib.linux-x86_64-2.5/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/__init__.py -> build/lib.linux-x86_64-2.5/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/builder.py -> build/lib.linux-x86_64-2.5/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/volume.py -> build/lib.linux-x86_64-2.5/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/hist.py -> build/lib.linux-x86_64-2.5/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/SimpleColorChooser.py -> build/lib.linux-x86_64-2.5/pmg_tk/skins/normal creating build/lib.linux-x86_64-2.5/pmg_wx copying modules/pmg_wx/__init__.py -> build/lib.linux-x86_64-2.5/pmg_wx creating build/lib.linux-x86_64-2.5/pymol copying modules/pymol/helping.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/parser.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/viewing.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/shortcut.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/wizarding.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/querying.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/completing.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/feedingback.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/xray.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/fitting.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/cgo.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/keywords.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/exporting.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/constants.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/rpc.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/povray.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/controlling.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/experimenting.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/headering.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/__init__.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/parsing.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/movie.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/externing.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/monitoring.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/util.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/api.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/computing.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/keyboard.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/creating.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/editing.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/internal.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/menu.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/importing.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/colorramping.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/gui.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/selecting.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/callback.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/checking.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/selector.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/preset.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/invocation.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/cmd.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/xwin.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/locking.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/setting.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/commanding.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/vfont.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/moving.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/m4x.py -> build/lib.linux-x86_64-2.5/pymol copying modules/pymol/editor.py -> build/lib.linux-x86_64-2.5/pymol creating build/lib.linux-x86_64-2.5/pymol/contrib copying modules/pymol/contrib/__init__.py -> build/lib.linux-x86_64-2.5/pymol/contrib creating build/lib.linux-x86_64-2.5/pymol/opengl copying modules/pymol/opengl/__init__.py -> build/lib.linux-x86_64-2.5/pymol/opengl creating build/lib.linux-x86_64-2.5/pymol/opengl/gl copying modules/pymol/opengl/gl/__init__.py -> build/lib.linux-x86_64-2.5/pymol/opengl/gl copying modules/pymol/opengl/gl/glconst.py -> build/lib.linux-x86_64-2.5/pymol/opengl/gl creating build/lib.linux-x86_64-2.5/pymol/opengl/glu copying modules/pymol/opengl/glu/__init__.py -> build/lib.linux-x86_64-2.5/pymol/opengl/glu copying modules/pymol/opengl/glu/gluconst.py -> build/lib.linux-x86_64-2.5/pymol/opengl/glu creating build/lib.linux-x86_64-2.5/pymol/opengl/glut copying modules/pymol/opengl/glut/__init__.py -> build/lib.linux-x86_64-2.5/pymol/opengl/glut copying modules/pymol/opengl/glut/glutconst.py -> build/lib.linux-x86_64-2.5/pymol/opengl/glut creating build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/toggle.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/pseudoatom.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/message.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/fedora.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/density.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/mutagenesis.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/__init__.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/distance.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/measurement.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/cleanup.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/demo.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/charge.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/renaming.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/annotation.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/appearance.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/sculpting.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/benchmark.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/box.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/stereodemo.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/security.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/filter.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/label.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/pair_fit.py -> build/lib.linux-x86_64-2.5/pymol/wizard copying modules/pymol/wizard/dragging.py -> build/lib.linux-x86_64-2.5/pymol/wizard creating build/lib.linux-x86_64-2.5/web copying modules/web/__init__.py -> build/lib.linux-x86_64-2.5/web copying modules/web/pymolhttpd.py -> build/lib.linux-x86_64-2.5/web creating build/lib.linux-x86_64-2.5/web/examples copying modules/web/examples/justhttpd.py -> build/lib.linux-x86_64-2.5/web/examples copying modules/web/examples/__init__.py -> build/lib.linux-x86_64-2.5/web/examples package init file 'modules/web/javascript/__init__.py' not found (or not a regular file) package init file 'modules/web/javascript/__init__.py' not found (or not a regular file) running build_ext building 'pymol._cmd' extension creating build/temp.linux-x86_64-2.5 creating build/temp.linux-x86_64-2.5/modules creating build/temp.linux-x86_64-2.5/modules/cealign creating build/temp.linux-x86_64-2.5/modules/cealign/src creating build/temp.linux-x86_64-2.5/ov creating build/temp.linux-x86_64-2.5/ov/src creating build/temp.linux-x86_64-2.5/layer0 creating build/temp.linux-x86_64-2.5/layer1 creating build/temp.linux-x86_64-2.5/layer2 creating build/temp.linux-x86_64-2.5/layer3 creating build/temp.linux-x86_64-2.5/layer4 creating build/temp.linux-x86_64-2.5/layer5 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c modules/cealign/src/ccealignmodule.cpp -o build/temp.linux-x86_64-2.5/modules/cealign/src/ccealignmodule.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from modules/cealign/src/ccealignmodule.H:57, from modules/cealign/src/ccealignmodule.cpp:32: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:163:0: note: this is the location of the previous definition /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:949:0: warning: "_XOPEN_SOURCE" redefined /usr/include/features.h:165:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c ov/src/OVContext.c -o build/temp.linux-x86_64-2.5/ov/src/OVContext.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c ov/src/OVHeapArray.c -o build/temp.linux-x86_64-2.5/ov/src/OVHeapArray.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c ov/src/OVHeap.c -o build/temp.linux-x86_64-2.5/ov/src/OVHeap.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c ov/src/OVLexicon.c -o build/temp.linux-x86_64-2.5/ov/src/OVLexicon.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c ov/src/OVOneToOne.c -o build/temp.linux-x86_64-2.5/ov/src/OVOneToOne.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c ov/src/OVOneToAny.c -o build/temp.linux-x86_64-2.5/ov/src/OVOneToAny.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c ov/src/OVRandom.c -o build/temp.linux-x86_64-2.5/ov/src/OVRandom.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c ov/src/ov_utility.c -o build/temp.linux-x86_64-2.5/ov/src/ov_utility.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Block.c -o build/temp.linux-x86_64-2.5/layer0/Block.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer5/main.h:36, from layer0/Block.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Crystal.c -o build/temp.linux-x86_64-2.5/layer0/Crystal.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/CGO.h:22, from layer0/Crystal.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Debug.c -o build/temp.linux-x86_64-2.5/layer0/Debug.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Deferred.c -o build/temp.linux-x86_64-2.5/layer0/Deferred.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Err.c -o build/temp.linux-x86_64-2.5/layer0/Err.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Feedback.c -o build/temp.linux-x86_64-2.5/layer0/Feedback.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Field.c -o build/temp.linux-x86_64-2.5/layer0/Field.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/PConv.h:20, from layer0/Field.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Isosurf.c -o build/temp.linux-x86_64-2.5/layer0/Isosurf.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/CGO.h:22, from layer0/Crystal.h:22, from layer1/Symmetry.h:20, from layer0/Isosurf.h:23, from layer0/Isosurf.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Map.c -o build/temp.linux-x86_64-2.5/layer0/Map.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer0/Map.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Match.c -o build/temp.linux-x86_64-2.5/layer0/Match.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Matrix.c -o build/temp.linux-x86_64-2.5/layer0/Matrix.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer0/Matrix.c:28: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/MemoryDebug.c -o build/temp.linux-x86_64-2.5/layer0/MemoryDebug.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/MemoryCache.c -o build/temp.linux-x86_64-2.5/layer0/MemoryCache.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/MyPNG.c -o build/temp.linux-x86_64-2.5/layer0/MyPNG.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer0/MyPNG.c:59: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Parse.c -o build/temp.linux-x86_64-2.5/layer0/Parse.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Pixmap.c -o build/temp.linux-x86_64-2.5/layer0/Pixmap.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Queue.c -o build/temp.linux-x86_64-2.5/layer0/Queue.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Raw.c -o build/temp.linux-x86_64-2.5/layer0/Raw.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Sphere.c -o build/temp.linux-x86_64-2.5/layer0/Sphere.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/ShaderMgr.c -o build/temp.linux-x86_64-2.5/layer0/ShaderMgr.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Tetsurf.c -o build/temp.linux-x86_64-2.5/layer0/Tetsurf.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/CGO.h:22, from layer0/Crystal.h:22, from layer1/Symmetry.h:20, from layer0/Isosurf.h:23, from layer0/Tetsurf.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Texture.c -o build/temp.linux-x86_64-2.5/layer0/Texture.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer0/Texture.c:29: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Tracker.c -o build/temp.linux-x86_64-2.5/layer0/Tracker.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Triangle.c -o build/temp.linux-x86_64-2.5/layer0/Triangle.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer0/Triangle.c:38: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Util.c -o build/temp.linux-x86_64-2.5/layer0/Util.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Vector.c -o build/temp.linux-x86_64-2.5/layer0/Vector.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/Word.c -o build/temp.linux-x86_64-2.5/layer0/Word.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/PyMOLObject.h:26, from layer0/Word.c:26: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer0/os_gl.c -o build/temp.linux-x86_64-2.5/layer0/os_gl.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Basis.c -o build/temp.linux-x86_64-2.5/layer1/Basis.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/ButMode.c -o build/temp.linux-x86_64-2.5/layer1/ButMode.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer5/main.h:36, from layer1/ButMode.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Character.c -o build/temp.linux-x86_64-2.5/layer1/Character.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/CGO.c -o build/temp.linux-x86_64-2.5/layer1/CGO.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/CGO.h:22, from layer1/CGO.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Color.c -o build/temp.linux-x86_64-2.5/layer1/Color.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Color.h:20, from layer1/Color.c:26: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Control.c -o build/temp.linux-x86_64-2.5/layer1/Control.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer5/main.h:36, from layer1/Control.c:21: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Extrude.c -o build/temp.linux-x86_64-2.5/layer1/Extrude.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/CGO.h:22, from layer1/Extrude.h:21, from layer1/Extrude.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Font.c -o build/temp.linux-x86_64-2.5/layer1/Font.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/FontType.c -o build/temp.linux-x86_64-2.5/layer1/FontType.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/PyMOLObject.h:26, from layer1/Scene.h:22, from layer1/FontType.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/FontGLUT.c -o build/temp.linux-x86_64-2.5/layer1/FontGLUT.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/PyMOLObject.h:26, from layer1/Scene.h:22, from layer1/FontGLUT.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/FontGLUT8x13.c -o build/temp.linux-x86_64-2.5/layer1/FontGLUT8x13.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/FontGLUT9x15.c -o build/temp.linux-x86_64-2.5/layer1/FontGLUT9x15.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/FontGLUTHel10.c -o build/temp.linux-x86_64-2.5/layer1/FontGLUTHel10.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/FontGLUTHel12.c -o build/temp.linux-x86_64-2.5/layer1/FontGLUTHel12.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/FontGLUTHel18.c -o build/temp.linux-x86_64-2.5/layer1/FontGLUTHel18.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Movie.c -o build/temp.linux-x86_64-2.5/layer1/Movie.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer3/Executive.h:20, from layer1/Movie.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Ortho.c -o build/temp.linux-x86_64-2.5/layer1/Ortho.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer5/main.h:36, from layer1/Ortho.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/P.c -o build/temp.linux-x86_64-2.5/layer1/P.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/P.c:49: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/PConv.c -o build/temp.linux-x86_64-2.5/layer1/PConv.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/PConv.c:19: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Pop.c -o build/temp.linux-x86_64-2.5/layer1/Pop.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/PyMOLObject.c -o build/temp.linux-x86_64-2.5/layer1/PyMOLObject.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer5/main.h:36, from layer1/PyMOLObject.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Ray.c -o build/temp.linux-x86_64-2.5/layer1/Ray.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/Ray.c:26: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Rep.c -o build/temp.linux-x86_64-2.5/layer1/Rep.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer5/main.h:36, from layer1/Rep.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Scene.c -o build/temp.linux-x86_64-2.5/layer1/Scene.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Scene.c:21: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/ScrollBar.c -o build/temp.linux-x86_64-2.5/layer1/ScrollBar.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Seq.c -o build/temp.linux-x86_64-2.5/layer1/Seq.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/PyMOLObject.h:26, from layer1/Seq.h:21, from layer1/Seq.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Setting.c -o build/temp.linux-x86_64-2.5/layer1/Setting.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/Setting.c:27: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Shaker.c -o build/temp.linux-x86_64-2.5/layer1/Shaker.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/CGO.h:22, from layer1/Shaker.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Symmetry.c -o build/temp.linux-x86_64-2.5/layer1/Symmetry.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Symmetry.c:19: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Text.c -o build/temp.linux-x86_64-2.5/layer1/Text.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Color.h:20, from layer1/Text.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/TypeFace.c -o build/temp.linux-x86_64-2.5/layer1/TypeFace.o -ffast-math -funroll-loops -O3 gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/Wizard.c -o build/temp.linux-x86_64-2.5/layer1/Wizard.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer5/main.h:36, from layer1/Wizard.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer1/View.c -o build/temp.linux-x86_64-2.5/layer1/View.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer5/main.h:36, from layer1/View.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/AtomInfo.c -o build/temp.linux-x86_64-2.5/layer2/AtomInfo.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer2/AtomInfo.h:21, from layer2/AtomInfo.c:21: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/CoordSet.c -o build/temp.linux-x86_64-2.5/layer2/CoordSet.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/PyMOLObject.h:26, from layer1/Scene.h:22, from layer2/CoordSet.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/GadgetSet.c -o build/temp.linux-x86_64-2.5/layer2/GadgetSet.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/PyMOLObject.h:26, from layer1/Scene.h:22, from layer2/GadgetSet.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/DistSet.c -o build/temp.linux-x86_64-2.5/layer2/DistSet.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/PyMOLObject.h:26, from layer1/Scene.h:22, from layer2/DistSet.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectAlignment.c -o build/temp.linux-x86_64-2.5/layer2/ObjectAlignment.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectAlignment.h:20, from layer2/ObjectAlignment.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectCGO.c -o build/temp.linux-x86_64-2.5/layer2/ObjectCGO.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectCGO.h:20, from layer2/ObjectCGO.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectCallback.c -o build/temp.linux-x86_64-2.5/layer2/ObjectCallback.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectCallback.h:20, from layer2/ObjectCallback.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectDist.c -o build/temp.linux-x86_64-2.5/layer2/ObjectDist.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer2/ObjectDist.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectMap.c -o build/temp.linux-x86_64-2.5/layer2/ObjectMap.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectMap.h:20, from layer2/ObjectMap.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectMesh.c -o build/temp.linux-x86_64-2.5/layer2/ObjectMesh.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectMap.h:20, from layer2/ObjectMesh.h:20, from layer2/ObjectMesh.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectMolecule.c -o build/temp.linux-x86_64-2.5/layer2/ObjectMolecule.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer3/Selector.h:20, from layer2/ObjectMolecule.c:30: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectMolecule2.c -o build/temp.linux-x86_64-2.5/layer2/ObjectMolecule2.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/PConv.h:20, from layer2/ObjectMolecule2.c:27: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectSurface.c -o build/temp.linux-x86_64-2.5/layer2/ObjectSurface.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectMap.h:20, from layer2/ObjectSurface.h:20, from layer2/ObjectSurface.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectSlice.c -o build/temp.linux-x86_64-2.5/layer2/ObjectSlice.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectMap.h:20, from layer2/ObjectSlice.h:20, from layer2/ObjectSlice.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectVolume.c -o build/temp.linux-x86_64-2.5/layer2/ObjectVolume.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectMap.h:20, from layer2/ObjectVolume.h:19, from layer2/ObjectVolume.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepCartoon.c -o build/temp.linux-x86_64-2.5/layer2/RepCartoon.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepCartoon.h:21, from layer2/RepCartoon.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepCylBond.c -o build/temp.linux-x86_64-2.5/layer2/RepCylBond.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectMolecule.h:20, from layer2/RepCylBond.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepDistDash.c -o build/temp.linux-x86_64-2.5/layer2/RepDistDash.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer2/DistSet.h:22, from layer2/RepDistDash.h:21, from layer2/RepDistDash.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepDistLabel.c -o build/temp.linux-x86_64-2.5/layer2/RepDistLabel.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer2/DistSet.h:22, from layer2/RepDistLabel.h:21, from layer2/RepDistLabel.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepDot.c -o build/temp.linux-x86_64-2.5/layer2/RepDot.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepDot.h:21, from layer2/RepDot.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepLabel.c -o build/temp.linux-x86_64-2.5/layer2/RepLabel.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepLabel.h:21, from layer2/RepLabel.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepMesh.c -o build/temp.linux-x86_64-2.5/layer2/RepMesh.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepMesh.h:21, from layer2/RepMesh.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectGadget.c -o build/temp.linux-x86_64-2.5/layer2/ObjectGadget.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectGadget.h:20, from layer2/ObjectGadget.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectGadgetRamp.c -o build/temp.linux-x86_64-2.5/layer2/ObjectGadgetRamp.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectGadgetRamp.h:20, from layer2/ObjectGadgetRamp.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/ObjectGroup.c -o build/temp.linux-x86_64-2.5/layer2/ObjectGroup.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectGroup.h:20, from layer2/ObjectGroup.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepAngle.c -o build/temp.linux-x86_64-2.5/layer2/RepAngle.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer2/DistSet.h:22, from layer2/RepAngle.h:21, from layer2/RepAngle.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepDihedral.c -o build/temp.linux-x86_64-2.5/layer2/RepDihedral.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer2/DistSet.h:22, from layer2/RepDihedral.h:21, from layer2/RepDihedral.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepNonbonded.c -o build/temp.linux-x86_64-2.5/layer2/RepNonbonded.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepNonbonded.h:21, from layer2/RepNonbonded.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepNonbondedSphere.c -o build/temp.linux-x86_64-2.5/layer2/RepNonbondedSphere.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepNonbondedSphere.h:21, from layer2/RepNonbondedSphere.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepRibbon.c -o build/temp.linux-x86_64-2.5/layer2/RepRibbon.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepRibbon.h:21, from layer2/RepRibbon.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepSphere.c -o build/temp.linux-x86_64-2.5/layer2/RepSphere.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepSphere.h:21, from layer2/RepSphere.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepEllipsoid.c -o build/temp.linux-x86_64-2.5/layer2/RepEllipsoid.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepEllipsoid.h:21, from layer2/RepEllipsoid.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepSurface.c -o build/temp.linux-x86_64-2.5/layer2/RepSurface.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepSurface.h:21, from layer2/RepSurface.c:25: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/RepWireBond.c -o build/temp.linux-x86_64-2.5/layer2/RepWireBond.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/CoordSet.h:20, from layer2/RepWireBond.h:21, from layer2/RepWireBond.c:22: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/Sculpt.c -o build/temp.linux-x86_64-2.5/layer2/Sculpt.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectMolecule.h:20, from layer2/Sculpt.h:21, from layer2/Sculpt.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/SculptCache.c -o build/temp.linux-x86_64-2.5/layer2/SculptCache.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectMolecule.h:20, from layer2/Sculpt.h:21, from layer2/SculptCache.h:20, from layer2/SculptCache.c:24: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer2/VFont.c -o build/temp.linux-x86_64-2.5/layer2/VFont.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/VFont.c:19: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer3/PlugIOManager.c -o build/temp.linux-x86_64-2.5/layer3/PlugIOManager.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectMolecule.h:20, from layer3/PlugIOManager.h:22, from layer3/PlugIOManager.c:20: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer3/Editor.c -o build/temp.linux-x86_64-2.5/layer3/Editor.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/PConv.h:20, from layer3/Editor.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer3/Executive.c -o build/temp.linux-x86_64-2.5/layer3/Executive.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer5/main.h:36, from layer3/Executive.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer3/Seeker.c -o build/temp.linux-x86_64-2.5/layer3/Seeker.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/Setting.h:20, from layer1/PyMOLObject.h:26, from layer1/Seq.h:21, from layer3/Seeker.c:23: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer3/Selector.c -o build/temp.linux-x86_64-2.5/layer3/Selector.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer1/PConv.h:20, from layer3/Selector.c:27: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer4/Cmd.c -o build/temp.linux-x86_64-2.5/layer4/Cmd.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer4/Cmd.c:47: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer4/Export.c -o build/temp.linux-x86_64-2.5/layer4/Export.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer4/Export.c:21: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer4/Menu.c -o build/temp.linux-x86_64-2.5/layer4/Menu.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer4/Menu.c:20: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer4/PopUp.c -o build/temp.linux-x86_64-2.5/layer4/PopUp.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer4/PopUp.c:20: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer5/PyMOL.c -o build/temp.linux-x86_64-2.5/layer5/PyMOL.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer3/Selector.h:20, from layer5/PyMOL.c:31: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer5/TestPyMOL.c -o build/temp.linux-x86_64-2.5/layer5/TestPyMOL.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer2/ObjectCGO.h:20, from layer5/TestPyMOL.c:29: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c layer5/main.c -o build/temp.linux-x86_64-2.5/layer5/main.o -ffast-math -funroll-loops -O3 In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from layer0/os_python.h:30, from layer5/main.c:19: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition g++ -pthread -shared -L/tmp/pkgsrc/lang/python25/work/Python-2.5.6 -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include build/temp.linux-x86_64-2.5/modules/cealign/src/ccealignmodule.o build/temp.linux-x86_64-2.5/ov/src/OVContext.o build/temp.linux-x86_64-2.5/ov/src/OVHeapArray.o build/temp.linux-x86_64-2.5/ov/src/OVHeap.o build/temp.linux-x86_64-2.5/ov/src/OVLexicon.o build/temp.linux-x86_64-2.5/ov/src/OVOneToOne.o build/temp.linux-x86_64-2.5/ov/src/OVOneToAny.o build/temp.linux-x86_64-2.5/ov/src/OVRandom.o build/temp.linux-x86_64-2.5/ov/src/ov_utility.o build/temp.linux-x86_64-2.5/layer0/Block.o build/temp.linux-x86_64-2.5/layer0/Crystal.o build/temp.linux-x86_64-2.5/layer0/Debug.o build/temp.linux-x86_64-2.5/layer0/Deferred.o build/temp.linux-x86_64-2.5/layer0/Err.o build/temp.linux-x86_64-2.5/layer0/Feedback.o build/temp.linux-x86_64-2.5/layer0/Field.o build/temp.linux-x86_64-2.5/layer0/Isosurf.o build/temp.linux-x86_64-2.5/layer0/Map.o build/temp.linux-x86_64-2.5/layer0/Match.o build/temp.linux-x86_64-2.5/layer0/Matrix.o build/temp.linux-x86_64-2.5/layer0/MemoryDebug.o build/temp.linux-x86_64-2.5/layer0/MemoryCache.o build/temp.linux-x86_64-2.5/layer0/MyPNG.o build/temp.linux-x86_64-2.5/layer0/Parse.o build/temp.linux-x86_64-2.5/layer0/Pixmap.o build/temp.linux-x86_64-2.5/layer0/Queue.o build/temp.linux-x86_64-2.5/layer0/Raw.o build/temp.linux-x86_64-2.5/layer0/Sphere.o build/temp.linux-x86_64-2.5/layer0/ShaderMgr.o build/temp.linux-x86_64-2.5/layer0/Tetsurf.o build/temp.linux-x86_64-2.5/layer0/Texture.o build/temp.linux-x86_64-2.5/layer0/Tracker.o build/temp.linux-x86_64-2.5/layer0/Triangle.o build/temp.linux-x86_64-2.5/layer0/Util.o build/temp.linux-x86_64-2.5/layer0/Vector.o build/temp.linux-x86_64-2.5/layer0/Word.o build/temp.linux-x86_64-2.5/layer0/os_gl.o build/temp.linux-x86_64-2.5/layer1/Basis.o build/temp.linux-x86_64-2.5/layer1/ButMode.o build/temp.linux-x86_64-2.5/layer1/Character.o build/temp.linux-x86_64-2.5/layer1/CGO.o build/temp.linux-x86_64-2.5/layer1/Color.o build/temp.linux-x86_64-2.5/layer1/Control.o build/temp.linux-x86_64-2.5/layer1/Extrude.o build/temp.linux-x86_64-2.5/layer1/Font.o build/temp.linux-x86_64-2.5/layer1/FontType.o build/temp.linux-x86_64-2.5/layer1/FontGLUT.o build/temp.linux-x86_64-2.5/layer1/FontGLUT8x13.o build/temp.linux-x86_64-2.5/layer1/FontGLUT9x15.o build/temp.linux-x86_64-2.5/layer1/FontGLUTHel10.o build/temp.linux-x86_64-2.5/layer1/FontGLUTHel12.o build/temp.linux-x86_64-2.5/layer1/FontGLUTHel18.o build/temp.linux-x86_64-2.5/layer1/Movie.o build/temp.linux-x86_64-2.5/layer1/Ortho.o build/temp.linux-x86_64-2.5/layer1/P.o build/temp.linux-x86_64-2.5/layer1/PConv.o build/temp.linux-x86_64-2.5/layer1/Pop.o build/temp.linux-x86_64-2.5/layer1/PyMOLObject.o build/temp.linux-x86_64-2.5/layer1/Ray.o build/temp.linux-x86_64-2.5/layer1/Rep.o build/temp.linux-x86_64-2.5/layer1/Scene.o build/temp.linux-x86_64-2.5/layer1/ScrollBar.o build/temp.linux-x86_64-2.5/layer1/Seq.o build/temp.linux-x86_64-2.5/layer1/Setting.o build/temp.linux-x86_64-2.5/layer1/Shaker.o build/temp.linux-x86_64-2.5/layer1/Symmetry.o build/temp.linux-x86_64-2.5/layer1/Text.o build/temp.linux-x86_64-2.5/layer1/TypeFace.o build/temp.linux-x86_64-2.5/layer1/Wizard.o build/temp.linux-x86_64-2.5/layer1/View.o build/temp.linux-x86_64-2.5/layer2/AtomInfo.o build/temp.linux-x86_64-2.5/layer2/CoordSet.o build/temp.linux-x86_64-2.5/layer2/GadgetSet.o build/temp.linux-x86_64-2.5/layer2/DistSet.o build/temp.linux-x86_64-2.5/layer2/ObjectAlignment.o build/temp.linux-x86_64-2.5/layer2/ObjectCGO.o build/temp.linux-x86_64-2.5/layer2/ObjectCallback.o build/temp.linux-x86_64-2.5/layer2/ObjectDist.o build/temp.linux-x86_64-2.5/layer2/ObjectMap.o build/temp.linux-x86_64-2.5/layer2/ObjectMesh.o build/temp.linux-x86_64-2.5/layer2/ObjectMolecule.o build/temp.linux-x86_64-2.5/layer2/ObjectMolecule2.o build/temp.linux-x86_64-2.5/layer2/ObjectSurface.o build/temp.linux-x86_64-2.5/layer2/ObjectSlice.o build/temp.linux-x86_64-2.5/layer2/ObjectVolume.o build/temp.linux-x86_64-2.5/layer2/RepCartoon.o build/temp.linux-x86_64-2.5/layer2/RepCylBond.o build/temp.linux-x86_64-2.5/layer2/RepDistDash.o build/temp.linux-x86_64-2.5/layer2/RepDistLabel.o build/temp.linux-x86_64-2.5/layer2/RepDot.o build/temp.linux-x86_64-2.5/layer2/RepLabel.o build/temp.linux-x86_64-2.5/layer2/RepMesh.o build/temp.linux-x86_64-2.5/layer2/ObjectGadget.o build/temp.linux-x86_64-2.5/layer2/ObjectGadgetRamp.o build/temp.linux-x86_64-2.5/layer2/ObjectGroup.o build/temp.linux-x86_64-2.5/layer2/RepAngle.o build/temp.linux-x86_64-2.5/layer2/RepDihedral.o build/temp.linux-x86_64-2.5/layer2/RepNonbonded.o build/temp.linux-x86_64-2.5/layer2/RepNonbondedSphere.o build/temp.linux-x86_64-2.5/layer2/RepRibbon.o build/temp.linux-x86_64-2.5/layer2/RepSphere.o build/temp.linux-x86_64-2.5/layer2/RepEllipsoid.o build/temp.linux-x86_64-2.5/layer2/RepSurface.o build/temp.linux-x86_64-2.5/layer2/RepWireBond.o build/temp.linux-x86_64-2.5/layer2/Sculpt.o build/temp.linux-x86_64-2.5/layer2/SculptCache.o build/temp.linux-x86_64-2.5/layer2/VFont.o build/temp.linux-x86_64-2.5/layer3/PlugIOManager.o build/temp.linux-x86_64-2.5/layer3/Editor.o build/temp.linux-x86_64-2.5/layer3/Executive.o build/temp.linux-x86_64-2.5/layer3/Seeker.o build/temp.linux-x86_64-2.5/layer3/Selector.o build/temp.linux-x86_64-2.5/layer4/Cmd.o build/temp.linux-x86_64-2.5/layer4/Export.o build/temp.linux-x86_64-2.5/layer4/Menu.o build/temp.linux-x86_64-2.5/layer4/PopUp.o build/temp.linux-x86_64-2.5/layer5/PyMOL.o build/temp.linux-x86_64-2.5/layer5/TestPyMOL.o build/temp.linux-x86_64-2.5/layer5/main.o -L/usr/X11R6/lib -L/usr/pkg/lib -lGL -lGLU -lglut -lpng -lz -lfreetype -lGLEW -lpython2.5 -o build/lib.linux-x86_64-2.5/pymol/_cmd.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'chempy.champ._champ' extension creating build/temp.linux-x86_64-2.5/contrib creating build/temp.linux-x86_64-2.5/contrib/champ gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -Icontrib/champ -I/usr/pkg/include/python2.5 -c contrib/champ/champ.c -o build/temp.linux-x86_64-2.5/contrib/champ/champ.o In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from contrib/champ/os_python.h:19, from contrib/champ/champ.h:20, from contrib/champ/champ.c:27: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -Icontrib/champ -I/usr/pkg/include/python2.5 -c contrib/champ/champ_module.c -o build/temp.linux-x86_64-2.5/contrib/champ/champ_module.o In file included from /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/Python.h:8:0, from contrib/champ/os_python.h:19, from contrib/champ/champ_module.c:19: /tmp/pkgsrc/biology/py-mol/work/.buildlink/include/python2.5/pyconfig.h:939:0: warning: "_POSIX_C_SOURCE" redefined /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -Icontrib/champ -I/usr/pkg/include/python2.5 -c contrib/champ/chiral.c -o build/temp.linux-x86_64-2.5/contrib/champ/chiral.o gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -Icontrib/champ -I/usr/pkg/include/python2.5 -c contrib/champ/err2.c -o build/temp.linux-x86_64-2.5/contrib/champ/err2.o gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -Icontrib/champ -I/usr/pkg/include/python2.5 -c contrib/champ/feedback2.c -o build/temp.linux-x86_64-2.5/contrib/champ/feedback2.o gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -Icontrib/champ -I/usr/pkg/include/python2.5 -c contrib/champ/list.c -o build/temp.linux-x86_64-2.5/contrib/champ/list.o gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -Icontrib/champ -I/usr/pkg/include/python2.5 -c contrib/champ/os_memory.c -o build/temp.linux-x86_64-2.5/contrib/champ/os_memory.o contrib/champ/os_memory.c: In function 'OSMemoryZero': contrib/champ/os_memory.c:65:18: warning: cast from pointer to integer of different size contrib/champ/os_memory.c: In function 'OSMemoryHashAdd': contrib/champ/os_memory.c:146:8: warning: cast from pointer to integer of different size contrib/champ/os_memory.c: In function 'OSMemoryHashRemove': contrib/champ/os_memory.c:159:8: warning: cast from pointer to integer of different size gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -Icontrib/champ -I/usr/pkg/include/python2.5 -c contrib/champ/sort.c -o build/temp.linux-x86_64-2.5/contrib/champ/sort.o gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -Icontrib/champ -I/usr/pkg/include/python2.5 -c contrib/champ/strblock.c -o build/temp.linux-x86_64-2.5/contrib/champ/strblock.o gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -Icontrib/champ -I/usr/pkg/include/python2.5 -c contrib/champ/vla.c -o build/temp.linux-x86_64-2.5/contrib/champ/vla.o gcc -pthread -shared -L/tmp/pkgsrc/lang/python25/work/Python-2.5.6 -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include build/temp.linux-x86_64-2.5/contrib/champ/champ.o build/temp.linux-x86_64-2.5/contrib/champ/champ_module.o build/temp.linux-x86_64-2.5/contrib/champ/chiral.o build/temp.linux-x86_64-2.5/contrib/champ/err2.o build/temp.linux-x86_64-2.5/contrib/champ/feedback2.o build/temp.linux-x86_64-2.5/contrib/champ/list.o build/temp.linux-x86_64-2.5/contrib/champ/os_memory.o build/temp.linux-x86_64-2.5/contrib/champ/sort.o build/temp.linux-x86_64-2.5/contrib/champ/strblock.o build/temp.linux-x86_64-2.5/contrib/champ/vla.o -L/usr/pkg/lib -lpython2.5 -o build/lib.linux-x86_64-2.5/chempy/champ/_champ.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'pymol.opengl.glu._glu_num' extension creating build/temp.linux-x86_64-2.5/contrib/pyopengl gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c contrib/pyopengl/_glu_nummodule.c -o build/temp.linux-x86_64-2.5/contrib/pyopengl/_glu_nummodule.o gcc -pthread -shared -L/tmp/pkgsrc/lang/python25/work/Python-2.5.6 -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include build/temp.linux-x86_64-2.5/contrib/pyopengl/_glu_nummodule.o -L/usr/X11R6/lib -L/usr/pkg/lib -lGL -lGLU -lglut -lGLEW -lpython2.5 -o build/lib.linux-x86_64-2.5/pymol/opengl/glu/_glu_num.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'pymol.opengl.glu._glu' extension gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c contrib/pyopengl/_glumodule.c -o build/temp.linux-x86_64-2.5/contrib/pyopengl/_glumodule.o gcc -pthread -shared -L/tmp/pkgsrc/lang/python25/work/Python-2.5.6 -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include build/temp.linux-x86_64-2.5/contrib/pyopengl/_glumodule.o -L/usr/X11R6/lib -L/usr/pkg/lib -lGL -lGLU -lglut -lGLEW -lpython2.5 -o build/lib.linux-x86_64-2.5/pymol/opengl/glu/_glu.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'pymol.opengl.glut._glut' extension gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c contrib/pyopengl/_glutmodule.c -o build/temp.linux-x86_64-2.5/contrib/pyopengl/_glutmodule.o gcc -pthread -shared -L/tmp/pkgsrc/lang/python25/work/Python-2.5.6 -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include build/temp.linux-x86_64-2.5/contrib/pyopengl/_glutmodule.o -L/usr/X11R6/lib -L/usr/pkg/lib -lGL -lGLU -lglut -lGLEW -lpython2.5 -o build/lib.linux-x86_64-2.5/pymol/opengl/glut/_glut.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'pymol.opengl.gl._opengl_num' extension gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c contrib/pyopengl/_opengl_nummodule.c -o build/temp.linux-x86_64-2.5/contrib/pyopengl/_opengl_nummodule.o gcc -pthread -shared -L/tmp/pkgsrc/lang/python25/work/Python-2.5.6 -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include build/temp.linux-x86_64-2.5/contrib/pyopengl/_opengl_nummodule.o -L/usr/X11R6/lib -L/usr/pkg/lib -lGL -lGLU -lglut -lGLEW -lpython2.5 -o build/lib.linux-x86_64-2.5/pymol/opengl/gl/_opengl_num.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'pymol.opengl.gl._opengl' extension gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c contrib/pyopengl/_openglmodule.c -o build/temp.linux-x86_64-2.5/contrib/pyopengl/_openglmodule.o gcc -pthread -shared -L/tmp/pkgsrc/lang/python25/work/Python-2.5.6 -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include build/temp.linux-x86_64-2.5/contrib/pyopengl/_openglmodule.o -L/usr/X11R6/lib -L/usr/pkg/lib -lGL -lGLU -lglut -lGLEW -lpython2.5 -o build/lib.linux-x86_64-2.5/pymol/opengl/gl/_opengl.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'pymol.opengl.gl.openglutil' extension gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c contrib/pyopengl/openglutil.c -o build/temp.linux-x86_64-2.5/contrib/pyopengl/openglutil.o gcc -pthread -shared -L/tmp/pkgsrc/lang/python25/work/Python-2.5.6 -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include build/temp.linux-x86_64-2.5/contrib/pyopengl/openglutil.o -L/usr/X11R6/lib -L/usr/pkg/lib -lGL -lGLU -lglut -lGLEW -lpython2.5 -o build/lib.linux-x86_64-2.5/pymol/opengl/gl/openglutil.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'pymol.opengl.gl.openglutil_num' extension gcc -DNDEBUG -O3 -pipe -fstack-protector -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/pkg/include/python2.5 -c contrib/pyopengl/openglutil_num.c -o build/temp.linux-x86_64-2.5/contrib/pyopengl/openglutil_num.o gcc -pthread -shared -L/tmp/pkgsrc/lang/python25/work/Python-2.5.6 -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include -I/usr/pkg/include -I/usr/pkg/include/freetype2 -I/usr/include build/temp.linux-x86_64-2.5/contrib/pyopengl/openglutil_num.o -L/usr/X11R6/lib -L/usr/pkg/lib -lGL -lGLU -lglut -lGLEW -lpython2.5 -o build/lib.linux-x86_64-2.5/pymol/opengl/gl/openglutil_num.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib After running: python setup.py install Please run, to complete the installation: python setup2.py install To uninstall PyMOL, run: python setup2.py uninstall => Unwrapping files-to-be-installed.