Attachment 152281 Details for Bug 197103 – Output of the test by make

Output of the test by make

patched.make-test.log (text/plain), 635.85 KB, created by sakaue.mamoru on 2015-01-27 22:04:04 UTC

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Creator: sakaue.mamoru

Created: 2015-01-27 22:04:04 UTC

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patch

obsolete

>Script started on Tue Jan 27 21:49:10 2015
>root@tmpjail:/ # cd /usr/ports/science/vmd

>root@tmpjail:/usr/ports/science/vmd # make stage && make check-plist && make stage-qa && make package

>===>   vmd-1.9.1_3 depends on file: /usr/local/sbin/pkg - found
>===> Fetching all distfiles required by vmd-1.9.1_3 for building
>===>  Extracting for vmd-1.9.1_3
>=> SHA256 Checksum OK for vmd-1.9.1.src.tar.gz.
>=> SHA256 Checksum OK for tachyon-0.99b2.tar.gz.
>=> SHA256 Checksum OK for Stride_src.tar.Z.
>/bin/mkdir -p /usr/ports/science/vmd/work
>/usr/bin/tar -xzf /usr/ports/distfiles/vmd-1.9.1.src.tar.gz -C /usr/ports/science/vmd/work
>/usr/bin/tar -xzf /usr/ports/science/vmd/work/vmd-1.9.1/lib/surf/surf.tar.Z -C /usr/ports/science/vmd/work/vmd-1.9.1/lib/surf
>/usr/bin/tar -xzf /usr/ports/distfiles/tachyon-0.99b2.tar.gz -C /usr/ports/science/vmd/work/vmd-1.9.1/lib
>/usr/bin/tar -xzf /usr/ports/distfiles/Stride_src.tar.Z -C /usr/ports/science/vmd/work/vmd-1.9.1/lib/stride
>===>  Patching for vmd-1.9.1_3
>===>  Applying FreeBSD patches for vmd-1.9.1_3
>/usr/bin/sed -i.bak "s/-lpthread/-pthread/" /usr/ports/science/vmd/work/vmd-1.9.1/configure
>/usr/bin/sed -i.bak "s/-ltk8.5/-ltk85/" /usr/ports/science/vmd/work/vmd-1.9.1/configure
>/usr/bin/sed -i.bak "s/-ltcl8.5/-ltcl85/" /usr/ports/science/vmd/work/vmd-1.9.1/configure
>/usr/bin/sed -i.bak "s%\$python_dir/lib_\$config_arch%/usr/local%" /usr/ports/science/vmd/work/vmd-1.9.1/configure
>/usr/bin/sed -i.bak "s/python2.5/python2.7/" /usr/ports/science/vmd/work/vmd-1.9.1/configure
>/usr/bin/sed -i.bak "s/.SILENT:/#.SILENT:/" /usr/ports/science/vmd/work/plugins/Makefile
>/usr/bin/sed -i.bak "s/.SILENT:/#.SILENT:/" /usr/ports/science/vmd/work/plugins/*/Makefile
>/usr/bin/sed -i.bak "s%log2f($[^ ,]*$)%logf(\1)/(float)M_LN2%g" /usr/ports/science/vmd/work/vmd-1.9.1/src/Orbital.C
>/usr/bin/sed -i.bak -e "s|%%PREFIX%%|/usr/local|g"  -e "s|/usr/local|/usr/local|g" /usr/ports/science/vmd/work/vmd-1.9.1/configure
>/usr/bin/sed -i.bak "s/\"gcc\"/\"gcc48\"/;s/\"g++\"/\"g++48\"/" /usr/ports/science/vmd/work/vmd-1.9.1/configure
>/usr/bin/sed -i.bak -E "s/(SHLD[[:space:]]*=[[:space:]]*)gcc/\1gcc48/"  /usr/ports/science/vmd/work/plugins/Make-arch
>/usr/bin/sed -i.bak -E "s/(CC[[:space:]]*=[[:space:]]*)cc/\1gcc48/"  /usr/ports/science/vmd/work/vmd-1.9.1/lib/stride/Makefile  /usr/ports/science/vmd/work/vmd-1.9.1/lib/surf/Makefile  /usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/unix/Make-arch  /usr/ports/science/vmd/work/plugins/cionize/mcudahacks/Makefile.specialbuilds  /usr/ports/science/vmd/work/plugins/cionize/Makefile.specialbuilds  /usr/ports/science/vmd/work/plugins/cionize/Makefile.mine  /usr/ports/science/vmd/work/plugins/cionize/Makefile.testing  /usr/ports/science/vmd/work/plugins/Make-arch
>/usr/bin/sed -i.bak -E "s/(CC[[:space:]]*=[[:space:]]*)gcc/\1gcc48/"  /usr/ports/science/vmd/work/plugins/Make-arch  /usr/ports/science/vmd/work/plugins/cionize/Makefile.mine  /usr/ports/science/vmd/work/plugins/cionize/Makefile.specialbuilds  /usr/ports/science/vmd/work/plugins/molfile_plugin/f77/Makefile  /usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/unix/Make-arch
>/usr/bin/sed -i.bak -E "s/(CXX[[:space:]]*=[[:space:]]*)g\+\+/\1g++48/"  /usr/ports/science/vmd/work/plugins/cionize/Makefile.specialbuilds  /usr/ports/science/vmd/work/plugins/fmtool/Makefile.specialbuilds  /usr/ports/science/vmd/work/plugins/hesstrans/src/foo/Makefile  /usr/ports/science/vmd/work/plugins/hesstrans/src/foo/nm_gnu.mak  /usr/ports/science/vmd/work/plugins/Make-arch
>===>   vmd-1.9.1_3 depends on executable: makedepend - found
>===>   vmd-1.9.1_3 depends on file: /usr/local/lib/python2.7/site-packages/Numeric/Numeric.py - found
>===>   vmd-1.9.1_3 depends on executable: gmake - found
>===>   vmd-1.9.1_3 depends on file: /usr/local/bin/python2.7 - found
>===>   vmd-1.9.1_3 depends on executable: gcc48 - found
>===>   vmd-1.9.1_3 depends on file: /usr/local/bin/as - found
>===>   vmd-1.9.1_3 depends on file: /usr/local/libdata/pkgconfig/glproto.pc - found
>===>   vmd-1.9.1_3 depends on file: /usr/local/libdata/pkgconfig/dri2proto.pc - found
>===>   vmd-1.9.1_3 depends on file: /usr/local/bin/perl5.18.4 - found
>===>   vmd-1.9.1_3 depends on shared library: libtcl85.so - found (/usr/local/lib/libtcl85.so.1.0)
>===>   vmd-1.9.1_3 depends on shared library: libtk85.so - found (/usr/local/lib/libtk85.so.1.0)
>===>   vmd-1.9.1_3 depends on shared library: libfltk.so - found (/usr/local/lib/libfltk.so.1.3)
>===>   vmd-1.9.1_3 depends on shared library: libnetcdf.so - found (/usr/local/lib/libnetcdf.so.4.3.2)
>===>   vmd-1.9.1_3 depends on shared library: libGLU.so - found (/usr/local/lib/libGLU.so.1.3.1)
>===>  Configuring for vmd-1.9.1_3
>===>  Building for vmd-1.9.1_3
>/usr/bin/env XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work NO_PIE=yes SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" PREFIX=/usr/local  LOCALBASE=/usr/local  LIBDIR="/usr/lib"  CC="gcc48" CFLAGS="-O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing"  CPP="cpp48" CPPFLAGS=""  LDFLAGS=" -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48" LIBS=""  CXX="g++48" CXXFLAGS="-O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48"  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -o root -g wheel -m 555"  BSD_INSTALL_LIB="install  -s -o root -g wheel -m 444"  BSD_INSTALL_SCRIPT="install  -o root -g wheel -m 555"  BSD_INSTALL_DATA="install  -o root -g wheel -m 0644"  BSD_INSTALL_MAN="install  -o root -g wheel -m 444" gmake bsd -C /usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/unix  && /bin/mv /usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/compile/bsd/tachyon  /usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/tachyon_FREEBSDAMD64
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/unix' ã«å¥ãã¾ã
>gmake all \
>"ARCH = bsd" \
>"CC = gcc48" \
>"CFLAGS += -O3 -fomit-frame-pointer -ffast-math -DBsd        " \
>"AR = ar" \
>"ARFLAGS = r" \
>"STRIP = strip" \
>"RANLIB = ranlib" \
>"LIBS = -L. -ltachyon    -lm"
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/unix' ã«å¥ãã¾ã
>Building Tachyon Parallel Ray Tracing library
>Copyright 1994-2007, John E. Stone
>All Rights Reserveed
>Making architecture directory ../compile/bsd
>Making library directory ../compile/bsd/libtachyon
>gmake ../compile ../compile/bsd ../compile/bsd/libtachyon  ../compile/bsd/libtachyon.a  ../compile/bsd/tachyon
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/unix' ã«å¥ãã¾ã
>gmake[3]: '../compile' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: '../compile/bsd' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: '../compile/bsd/libtachyon' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/api.c -o ../compile/bsd/libtachyon/api.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/apigeom.c -o ../compile/bsd/libtachyon/apigeom.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/box.c -o ../compile/bsd/libtachyon/box.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/global.c -o ../compile/bsd/libtachyon/global.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/hash.c -o ../compile/bsd/libtachyon/hash.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/parallel.c -o ../compile/bsd/libtachyon/parallel.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/threads.c -o ../compile/bsd/libtachyon/threads.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/camera.c -o ../compile/bsd/libtachyon/camera.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/render.c -o ../compile/bsd/libtachyon/render.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/trace.c -o ../compile/bsd/libtachyon/trace.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/grid.c -o ../compile/bsd/libtachyon/grid.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/intersect.c -o ../compile/bsd/libtachyon/intersect.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/sphere.c -o ../compile/bsd/libtachyon/sphere.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/plane.c -o ../compile/bsd/libtachyon/plane.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/ring.c -o ../compile/bsd/libtachyon/ring.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/triangle.c -o ../compile/bsd/libtachyon/triangle.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/cylinder.c -o ../compile/bsd/libtachyon/cylinder.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/quadric.c -o ../compile/bsd/libtachyon/quadric.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/extvol.c -o ../compile/bsd/libtachyon/extvol.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/vol.c -o ../compile/bsd/libtachyon/vol.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/ui.c -o ../compile/bsd/libtachyon/ui.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/util.c -o ../compile/bsd/libtachyon/util.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/vector.c -o ../compile/bsd/libtachyon/vector.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/shade.c -o ../compile/bsd/libtachyon/shade.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/texture.c -o ../compile/bsd/libtachyon/texture.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/coordsys.c -o ../compile/bsd/libtachyon/coordsys.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/imap.c -o ../compile/bsd/libtachyon/imap.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/light.c -o ../compile/bsd/libtachyon/light.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/imageio.c -o ../compile/bsd/libtachyon/imageio.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/jpeg.c -o ../compile/bsd/libtachyon/jpeg.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/pngfile.c -o ../compile/bsd/libtachyon/pngfile.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/ppm.c -o ../compile/bsd/libtachyon/ppm.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/psd.c -o ../compile/bsd/libtachyon/psd.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/sgirgb.c -o ../compile/bsd/libtachyon/sgirgb.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/tgafile.c -o ../compile/bsd/libtachyon/tgafile.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -c ../src/winbmp.c -o ../compile/bsd/libtachyon/winbmp.o
>rm -f ../compile/bsd/libtachyon.a
>ar r ../compile/bsd/libtachyon.a ../compile/bsd/libtachyon/api.o ../compile/bsd/libtachyon/apigeom.o ../compile/bsd/libtachyon/box.o ../compile/bsd/libtachyon/global.o ../compile/bsd/libtachyon/hash.o ../compile/bsd/libtachyon/parallel.o ../compile/bsd/libtachyon/threads.o ../compile/bsd/libtachyon/camera.o ../compile/bsd/libtachyon/render.o ../compile/bsd/libtachyon/trace.o ../compile/bsd/libtachyon/grid.o ../compile/bsd/libtachyon/intersect.o ../compile/bsd/libtachyon/sphere.o ../compile/bsd/libtachyon/plane.o ../compile/bsd/libtachyon/ring.o ../compile/bsd/libtachyon/triangle.o ../compile/bsd/libtachyon/cylinder.o ../compile/bsd/libtachyon/quadric.o ../compile/bsd/libtachyon/extvol.o ../compile/bsd/libtachyon/vol.o ../compile/bsd/libtachyon/ui.o ../compile/bsd/libtachyon/util.o ../compile/bsd/libtachyon/vector.o ../compile/bsd/libtachyon/shade.o ../compile/bsd/libtachyon/texture.o ../compile/bsd/libtachyon/coordsys.o ../compile/bsd/libtachyon/imap.o ../compile/bsd/libtachyon/light.o ../compile/bsd/libtachyon/imageio.o ../compile/bsd/libtachyon/jpeg.o ../compile/bsd/libtachyon/pngfile.o ../compile/bsd/libtachyon/ppm.o ../compile/bsd/libtachyon/psd.o ../compile/bsd/libtachyon/sgirgb.o ../compile/bsd/libtachyon/tgafile.o ../compile/bsd/libtachyon/winbmp.o
>ar: warning: creating ../compile/bsd/libtachyon.a
>ranlib ../compile/bsd/libtachyon.a
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -I../src -I../demosrc -c ../demosrc/main.c -o ../compile/bsd/libtachyon/main.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -I../src -I../demosrc -c ../demosrc/getargs.c -o ../compile/bsd/libtachyon/getargs.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd          -I../src -I../demosrc -c ../demosrc/parse.c -o ../compile/bsd/libtachyon/parse.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd          -I../src -I../demosrc -c ../demosrc/nffparse.c -o ../compile/bsd/libtachyon/nffparse.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -I../src -I../demosrc -c ../demosrc/glwin.c -o ../compile/bsd/libtachyon/glwin.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -I../src -I../demosrc -c ../demosrc/spaceball.c -o ../compile/bsd/libtachyon/spaceball.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -I../src -I../demosrc -c ../demosrc/trackball.c -o ../compile/bsd/libtachyon/trackball.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd          -I../src -I../demosrc  -c ../demosrc/mgfparse.c -o ../compile/bsd/libtachyon/mgfparse.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd          -I../src -I../demosrc -c ../demosrc/ac3dparse.c -o ../compile/bsd/libtachyon/ac3dparse.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O3 -fomit-frame-pointer -ffast-math -DBsd         -I../src -I../demosrc -o ../compile/bsd/tachyon ../compile/bsd/libtachyon/main.o ../compile/bsd/libtachyon/getargs.o ../compile/bsd/libtachyon/parse.o ../compile/bsd/libtachyon/nffparse.o ../compile/bsd/libtachyon/glwin.o ../compile/bsd/libtachyon/spaceball.o ../compile/bsd/libtachyon/trackball.o ../compile/bsd/libtachyon/mgfparse.o ../compile/bsd/libtachyon/ac3dparse.o  -L../compile/bsd   -L. -ltachyon    -lm
>strip ../compile/bsd/tachyon
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/unix' ããåºã¾ã
>
>Build Complete
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/unix' ããåºã¾ã
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/tachyon/unix' ããåºã¾ã
>/usr/bin/env XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work NO_PIE=yes SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" PREFIX=/usr/local  LOCALBASE=/usr/local  LIBDIR="/usr/lib"  CC="gcc48" CFLAGS="-O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing"  CPP="cpp48" CPPFLAGS=""  LDFLAGS=" -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48" LIBS=""  CXX="g++48" CXXFLAGS="-O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48"  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -o root -g wheel -m 555"  BSD_INSTALL_LIB="install  -s -o root -g wheel -m 444"  BSD_INSTALL_SCRIPT="install  -o root -g wheel -m 555"  BSD_INSTALL_DATA="install  -o root -g wheel -m 0644"  BSD_INSTALL_MAN="install  -o root -g wheel -m 444" TCLLIB=-L/usr/local/lib/tcl8.5  TCLINC=-I/usr/local/include/tcl8.5 PLUGINDIR=/usr/ports/science/vmd/work/vmd-1.9.1/plugins  gmake FREEBSDAMD64 distrib -C /usr/ports/science/vmd/work/plugins
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins' ã«å¥ãã¾ã
>gmake dynlibs staticlibs bins \
>"ARCH = FREEBSDAMD64" \
>"COPTO = -fPIC -m64 -o " \
>"LOPTO = -fPIC -m64 -o " \
>"CC = gcc48" \
>"CXX = g++48" \
>"DEF = -D" \
>"CCFLAGS = -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5" \
>"CXXFLAGS = -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall" \
>"TCLLDFLAGS = -L/usr/local/lib -ltcl85" \
>"NETCDFLDFLAGS = -lnetcdf " \
>"AR = ar" \
>"NM = nm -p" \
>"RANLIB = touch" \
>"SHLD = gcc48 -shared"
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins' ã«å¥ãã¾ã
>cd molfile_plugin; gmake dynlibs && cd .. || exit 1
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molfile_plugin' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/molfile
>Building Molecule File Reader plugins
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/abinitplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/abinitplugin.o
>In file included from src/abinitplugin.c:65:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/abinitplugin.so ../compile/lib_FREEBSDAMD64/molfile/abinitplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/biomoccaplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/biomoccaplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/biomoccaplugin.so ../compile/lib_FREEBSDAMD64/molfile/biomoccaplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/cpmdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cpmdplugin.o
>src/cpmdplugin.c:84:12: warning: 'read_cpmd_structure' defined but not used [-Wunused-function]
> static int read_cpmd_structure(void *mydata, int *optflags, 
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cpmdplugin.so ../compile/lib_FREEBSDAMD64/molfile/cpmdplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/psfplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/psfplugin.o
>src/psfplugin.c: In function 'write_psf_structure':
>src/psfplugin.c:643:19: warning: variable 'atomname' set but not used [-Wunused-but-set-variable]
>       const char *atomname; 
>                   ^
>In file included from src/fortread.h:28:0,
>                 from src/psfplugin.c:24:
>src/psfplugin.c: At top level:
>src/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'swap4_unaligned' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'swap8_unaligned' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'swap2_aligned' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'swap8_aligned' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>In file included from src/psfplugin.c:24:0:
>src/fortread.h:36:12: warning: 'fort_eat_recmark' defined but not used [-Wunused-function]
> static int fort_eat_recmark(FILE *ifp, int recmarklen) {
>            ^
>src/fortread.h:55:12: warning: 'fort_get_endian_reclen' defined but not used [-Wunused-function]
> static int fort_get_endian_reclen(int reclen, int word0, int word1, 
>            ^
>src/fortread.h:103:12: warning: 'fortread_4' defined but not used [-Wunused-function]
> static int fortread_4(void *dest, int n, int swap, FILE *fd) {
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/psfplugin.so ../compile/lib_FREEBSDAMD64/molfile/psfplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/pdbplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pdbplugin.o
>In file included from src/pdbplugin.c:27:0:
>src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pdbplugin.so ../compile/lib_FREEBSDAMD64/molfile/pdbplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/dcdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dcdplugin.o
>In file included from src/dcdplugin.c:46:0:
>src/fastio.h:468:12: warning: 'fio_read_int32' defined but not used [-Wunused-function]
> static int fio_read_int32(fio_fd fd, int *i) {
>            ^
>src/fastio.h:472:12: warning: 'fio_write_str' defined but not used [-Wunused-function]
> static int fio_write_str(fio_fd fd, const char *str) {
>            ^
>In file included from src/dcdplugin.c:55:0:
>src/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'swap2_aligned' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dcdplugin.so ../compile/lib_FREEBSDAMD64/molfile/dcdplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/babelplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/babelplugin.o
>In file included from src/babelplugin.c:36:0:
>src/readpdb.h:187:13: warning: 'get_pdb_header' defined but not used [-Wunused-function]
> static void get_pdb_header(const char *record, char *pdbcode, char *date,
>             ^
>src/readpdb.h:207:13: warning: 'get_pdb_conect' defined but not used [-Wunused-function]
> static void get_pdb_conect(const char *record, int natoms, int *idxmap,
>             ^
>src/readpdb.h:348:12: warning: 'write_raw_pdb_record' defined but not used [-Wunused-function]
> static int write_raw_pdb_record(FILE *fd, const char *recordname,
>            ^
>In file included from src/babelplugin.c:37:0:
>src/vmddir.h:132:12: warning: 'vmd_file_is_executable' defined but not used [-Wunused-function]
> static int vmd_file_is_executable(const char * filename) {
>            ^
>In file included from src/babelplugin.c:38:0:
>src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
> static const char *get_pte_label(const int idx)
>                    ^
>src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>src/babelplugin.c:319:20: warning: 'openbabel11type_from_name' defined but not used [-Wunused-function]
> static const char *openbabel11type_from_name(const char *name) {
>                    ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/babelplugin.so ../compile/lib_FREEBSDAMD64/molfile/babelplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/gromacsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gromacsplugin.o
>In file included from src/gromacsplugin.C:25:0:
>src/Gromacs.h: In function 'int mdio_timestep(md_file*, md_ts*)':
>src/Gromacs.h:1853:53: warning: 'bitsizeint[2]' may be used uninitialized in this function [-Wmaybe-uninitialized]
>    thiscoord[2] = xtc_receivebits(buf, bitsizeint[2]);
>                                                     ^
>src/Gromacs.h:1764:37: note: 'bitsizeint[2]' was declared here
>  unsigned sizeint[3], sizesmall[3], bitsizeint[3], size3;
>                                     ^
>src/Gromacs.h:1852:53: warning: 'bitsizeint[1]' may be used uninitialized in this function [-Wmaybe-uninitialized]
>    thiscoord[1] = xtc_receivebits(buf, bitsizeint[1]);
>                                                     ^
>src/Gromacs.h:1764:37: note: 'bitsizeint[1]' was declared here
>  unsigned sizeint[3], sizesmall[3], bitsizeint[3], size3;
>                                     ^
>src/Gromacs.h:1851:53: warning: 'bitsizeint[0]' may be used uninitialized in this function [-Wmaybe-uninitialized]
>    thiscoord[0] = xtc_receivebits(buf, bitsizeint[0]);
>                                                     ^
>src/Gromacs.h:1764:37: note: 'bitsizeint[0]' was declared here
>  unsigned sizeint[3], sizesmall[3], bitsizeint[3], size3;
>                                     ^
>In file included from src/Gromacs.h:48:0,
>                 from src/gromacsplugin.C:25:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gromacsplugin.so ../compile/lib_FREEBSDAMD64/molfile/gromacsplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/parmplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parmplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parmplugin.so ../compile/lib_FREEBSDAMD64/molfile/parmplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/crdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/crdplugin.o
>src/crdplugin.c: In function 'write_crd_timestep':
>src/crdplugin.c:162:6: warning: 'lfdone' may be used uninitialized in this function [-Wmaybe-uninitialized]
>   if (!lfdone)
>      ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/crdplugin.so ../compile/lib_FREEBSDAMD64/molfile/crdplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/namdbinplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/namdbinplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/namdbinplugin.so ../compile/lib_FREEBSDAMD64/molfile/namdbinplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/binposplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/binposplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/binposplugin.so ../compile/lib_FREEBSDAMD64/molfile/binposplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/graspplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/graspplugin.o
>In file included from src/graspplugin.C:35:0:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/graspplugin.so ../compile/lib_FREEBSDAMD64/molfile/graspplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/msmsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/msmsplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/msmsplugin.so ../compile/lib_FREEBSDAMD64/molfile/msmsplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/stlplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/stlplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/stlplugin.so ../compile/lib_FREEBSDAMD64/molfile/stlplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/offplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/offplugin.o
>src/offplugin.C: In function 'int read_rawgraphics(void*, int*, const molfile_graphics_t**)':
>src/offplugin.C:145:7: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized]
>       if (j < k + 1 || k < 3)
>       ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/offplugin.so ../compile/lib_FREEBSDAMD64/molfile/offplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/cubeplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cubeplugin.o
>In file included from src/cubeplugin.C:37:0:
>src/periodic_table.h:133:12: warning: 'int get_pte_idx(const char*)' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cubeplugin.so ../compile/lib_FREEBSDAMD64/molfile/cubeplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/edmplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/edmplugin.o
>src/edmplugin.C: In function 'int read_edm_data(void*, int, float*, float*)':
>src/edmplugin.C:202:10: warning: unused variable 'l' [-Wunused-variable]
>   int z, l, sentinel, convcnt;
>          ^
>src/edmplugin.C:215:7: warning: unused variable 'leftover' [-Wunused-variable]
>   int leftover = (nperslice - (nlines - 1) * 6);
>       ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/edmplugin.so ../compile/lib_FREEBSDAMD64/molfile/edmplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/ccp4plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/ccp4plugin.o
>src/ccp4plugin.C: In function 'int read_ccp4_data(void*, int, float*, float*)':
>src/ccp4plugin.C:365:68: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>       if ( fread(rowdata, sizeof(float), extent[0], fd) != extent[0] ) {
>                                                                    ^
>In file included from src/ccp4plugin.C:39:0:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/ccp4plugin.so ../compile/lib_FREEBSDAMD64/molfile/ccp4plugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/dsn6plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dsn6plugin.o
>In file included from src/dsn6plugin.C:58:0:
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:110:13: warning: 'void swap4_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dsn6plugin.so ../compile/lib_FREEBSDAMD64/molfile/dsn6plugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/brixplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/brixplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/brixplugin.so ../compile/lib_FREEBSDAMD64/molfile/brixplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/pltplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pltplugin.o
>src/pltplugin.C: In function 'int read_plt_data(void*, int, float*, float*)':
>src/pltplugin.C:138:54: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>   if ( fread(datablock, sizeof(float), ndata, fd) != ndata ) {
>                                                      ^
>In file included from src/pltplugin.C:37:0:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pltplugin.so ../compile/lib_FREEBSDAMD64/molfile/pltplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/raster3dplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/raster3dplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/raster3dplugin.so ../compile/lib_FREEBSDAMD64/molfile/raster3dplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/parm7plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parm7plugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parm7plugin.so ../compile/lib_FREEBSDAMD64/molfile/parm7plugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/rst7plugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/rst7plugin.o
>src/rst7plugin.c: In function 'open_rst_read':
>src/rst7plugin.c:38:11: warning: variable 'timesteprst' set but not used [-Wunused-but-set-variable]
>   double  timesteprst;
>           ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/rst7plugin.so ../compile/lib_FREEBSDAMD64/molfile/rst7plugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/tinkerplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/tinkerplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/tinkerplugin.so ../compile/lib_FREEBSDAMD64/molfile/tinkerplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/uhbdplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/uhbdplugin.o
>src/uhbdplugin.C: In function 'void* open_uhbd_read(const char*, const char*, int*)':
>src/uhbdplugin.C:85:22: warning: variable 'o' set but not used [-Wunused-but-set-variable]
>   float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3];
>                      ^
>src/uhbdplugin.C:85:28: warning: variable 's' set but not used [-Wunused-but-set-variable]
>   float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3];
>                            ^
>src/uhbdplugin.C: In function 'int read_uhbd_data(void*, int, float*, float*)':
>src/uhbdplugin.C:249:69: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>       if (fread(datablock + z*xysize, sizeof(float), xysize, fd) != xysize) {
>                                                                     ^
>In file included from src/uhbdplugin.C:42:0:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/uhbdplugin.so ../compile/lib_FREEBSDAMD64/molfile/uhbdplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/vaspchgcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspchgcarplugin.o
>In file included from src/vaspchgcarplugin.c:36:0:
>src/vaspplugin.h:111:13: warning: 'vasp_timestep_unitcell' defined but not used [-Wunused-function]
> static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspchgcarplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspchgcarplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/vaspparchgplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspparchgplugin.o
>In file included from src/vaspparchgplugin.c:36:0:
>src/vaspplugin.h:111:13: warning: 'vasp_timestep_unitcell' defined but not used [-Wunused-function]
> static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspparchgplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspparchgplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/vaspposcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspposcarplugin.o
>In file included from src/vaspposcarplugin.c:35:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspposcarplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspposcarplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/vaspoutcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspoutcarplugin.o
>In file included from src/vaspoutcarplugin.c:35:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspoutcarplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspoutcarplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/vaspxdatcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxdatcarplugin.o
>In file included from src/vaspxdatcarplugin.c:35:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxdatcarplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspxdatcarplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/vaspxmlplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxmlplugin.o
>In file included from src/vaspxmlplugin.c:42:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxmlplugin.so ../compile/lib_FREEBSDAMD64/molfile/vaspxmlplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/dlpolyplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dlpolyplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dlpolyplugin.so ../compile/lib_FREEBSDAMD64/molfile/dlpolyplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/lammpsplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/lammpsplugin.o
>src/lammpsplugin.c: In function 'read_lammps_structure':
>src/lammpsplugin.c:772:44: warning: unused variable 'has_diameter' [-Wunused-variable]
>     int has_element, has_mass, has_radius, has_diameter;
>                                            ^
>In file included from src/lammpsplugin.c:63:0:
>src/lammpsplugin.c: At top level:
>src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
> static const char *get_pte_label(const int idx)
>                    ^
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>In file included from src/hash.h:37:0,
>                 from src/lammpsplugin.c:69:
>src/hash.c:183:21: warning: 'hash_delete' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) {
>                     ^
>src/hash.c:270:24: warning: 'hash_stats' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) {
>                        ^
>In file included from src/inthash.h:40:0,
>                 from src/lammpsplugin.c:70:
>src/inthash.c:182:21: warning: 'inthash_delete' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC int inthash_delete(inthash_t *tptr, int key) {
>                     ^
>src/inthash.c:269:24: warning: 'inthash_stats' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC char * inthash_stats(inthash_t *tptr) {
>                        ^
>src/lammpsplugin.c: In function 'read_lammps_timestep':
>src/lammpsplugin.c:1201:38: warning: 'ylohi' may be used uninitialized in this function [-Wmaybe-uninitialized]
>           ts->coords[addr + 1] += iy * ylohi + iz * yz;
>                                      ^
>src/lammpsplugin.c: In function 'read_lammps_structure':
>src/lammpsplugin.c:599:11: warning: 'idlist' may be used uninitialized in this function [-Wmaybe-uninitialized]
>       free(idlist);
>           ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/lammpsplugin.so ../compile/lib_FREEBSDAMD64/molfile/lammpsplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/vtfplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vtfplugin.o
>src/vtfplugin.c: In function 'vtf_parse_atom':
>src/vtfplugin.c:229:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[16]' [-Wformat=]
>       if (sscanf(s, "%16s %n", &atom.name, &n) < 1) {
>       ^
>src/vtfplugin.c:238:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[16]' [-Wformat=]
>       if (sscanf(s, "%16s %n", &atom.type, &n) < 1) {
>       ^
>src/vtfplugin.c:264:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[8]' [-Wformat=]
>  if (sscanf(s, "%8s %n", &atom.resname, &n) < 1) {
>  ^
>src/vtfplugin.c:279:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[8]' [-Wformat=]
>       if (sscanf(s, "%8s %n", &atom.segid, &n) < 1) {
>       ^
>src/vtfplugin.c:288:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat=]
>       if (sscanf(s, "%2s %n", &atom.insertion, &n) < 1) {
>       ^
>src/vtfplugin.c:300:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat=]
>  if (sscanf(s, "%2s %n", &atom.chain, &n) < 1) {
>  ^
>src/vtfplugin.c:334:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat=]
>  if (sscanf(s, "%2s %n", &atom.altloc, &n) < 1) {
>  ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vtfplugin.so ../compile/lib_FREEBSDAMD64/molfile/vtfplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/xyzplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xyzplugin.o
>In file included from src/xyzplugin.c:52:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xyzplugin.so ../compile/lib_FREEBSDAMD64/molfile/xyzplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/corplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/corplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/corplugin.so ../compile/lib_FREEBSDAMD64/molfile/corplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/moldenplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/moldenplugin.o
>src/moldenplugin.c: In function 'read_molden_rundata':
>src/moldenplugin.c:580:25: warning: variable 'hessian_data' set but not used [-Wunused-but-set-variable]
>   molfile_qm_hessian_t *hessian_data;
>                         ^
>src/moldenplugin.c: In function 'get_basis':
>src/moldenplugin.c:823:36: warning: unused variable 's_coeff2' [-Wunused-variable]
>  char s_expon[128], s_coeff1[128], s_coeff2[128];
>                                    ^
>src/moldenplugin.c:823:21: warning: unused variable 's_coeff1' [-Wunused-variable]
>  char s_expon[128], s_coeff1[128], s_coeff2[128];
>                     ^
>src/moldenplugin.c:823:7: warning: unused variable 's_expon' [-Wunused-variable]
>  char s_expon[128], s_coeff1[128], s_coeff2[128];
>       ^
>In file included from src/moldenplugin.c:32:0:
>src/moldenplugin.c: At top level:
>src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
> static const char *get_pte_label(const int idx)
>                    ^
>src/periodic_table.h:102:14: warning: 'get_pte_mass' defined but not used [-Wunused-function]
> static float get_pte_mass(const int idx)
>              ^
>src/periodic_table.h:109:14: warning: 'get_pte_vdw_radius' defined but not used [-Wunused-function]
> static float get_pte_vdw_radius(const int idx)
>              ^
>src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>In file included from src/moldenplugin.c:33:0:
>src/qmplugin.h:706:12: warning: 'symmetry_expand' defined but not used [-Wunused-function]
> static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms, 
>            ^
>src/qmplugin.h:1001:12: warning: 'have_keyline' defined but not used [-Wunused-function]
> static int have_keyline(FILE *file, const char *keystring1,
>            ^
>src/qmplugin.h:1072:13: warning: 'thisline' defined but not used [-Wunused-function]
> static void thisline(FILE *file) {
>             ^
>src/qmplugin.h:1092:13: warning: 'whereami' defined but not used [-Wunused-function]
> static void whereami(FILE *file) {
>             ^
>src/qmplugin.h:485:13: warning: 'replace_wavefunction' defined but not used [-Wunused-function]
> static void replace_wavefunction(qm_timestep_t *ts, int n) {
>             ^
>src/qmplugin.h:502:13: warning: 'del_wavefunction' defined but not used [-Wunused-function]
> static void del_wavefunction(qm_timestep_t *ts) {
>             ^
>src/qmplugin.h:580:13: warning: 'print_matrix4' defined but not used [-Wunused-function]
> static void print_matrix4(const float mat[16]) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/moldenplugin.so ../compile/lib_FREEBSDAMD64/molfile/moldenplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/phiplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/phiplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/phiplugin.so ../compile/lib_FREEBSDAMD64/molfile/phiplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/pbeqplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pbeqplugin.o
>src/pbeqplugin.C: In function 'int read_pbeq_data(void*, int, float*, float*)':
>src/pbeqplugin.C:257:55: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>           printf("pbeqplugin) offset: %d\n", ftell(fd));
>                                                       ^
>In file included from src/pbeqplugin.C:48:0:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pbeqplugin.so ../compile/lib_FREEBSDAMD64/molfile/pbeqplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/grdplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/grdplugin.o
>In file included from src/grdplugin.C:46:0:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/grdplugin.so ../compile/lib_FREEBSDAMD64/molfile/grdplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/situsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/situsplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/situsplugin.so ../compile/lib_FREEBSDAMD64/molfile/situsplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/dxplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dxplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dxplugin.so ../compile/lib_FREEBSDAMD64/molfile/dxplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/spiderplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/spiderplugin.o
>src/spiderplugin.C: In function 'int read_spider_data(void*, int, float*, float*)':
>src/spiderplugin.C:272:7: warning: unused variable 'x' [-Wunused-variable]
>   int x, y, z, xsize, ysize, zsize, xysize, total;
>       ^
>src/spiderplugin.C:272:10: warning: unused variable 'y' [-Wunused-variable]
>   int x, y, z, xsize, ysize, zsize, xysize, total;
>          ^
>src/spiderplugin.C:272:13: warning: unused variable 'z' [-Wunused-variable]
>   int x, y, z, xsize, ysize, zsize, xysize, total;
>             ^
>In file included from src/spiderplugin.C:31:0:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/spiderplugin.so ../compile/lib_FREEBSDAMD64/molfile/spiderplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/mapplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mapplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mapplugin.so ../compile/lib_FREEBSDAMD64/molfile/mapplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/avsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/avsplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/avsplugin.so ../compile/lib_FREEBSDAMD64/molfile/avsplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/fs4plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/fs4plugin.o
>In file included from src/fs4plugin.C:42:0:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>In file included from src/fs4plugin.C:43:0:
>src/fortread.h:36:12: warning: 'int fort_eat_recmark(FILE*, int)' defined but not used [-Wunused-function]
> static int fort_eat_recmark(FILE *ifp, int recmarklen) {
>            ^
>src/fortread.h:55:12: warning: 'int fort_get_endian_reclen(int, int, int, int*, int*)' defined but not used [-Wunused-function]
> static int fort_get_endian_reclen(int reclen, int word0, int word1, 
>            ^
>src/fortread.h:133:13: warning: 'void strnwscpy(char*, const char*, int)' defined but not used [-Wunused-function]
> static void strnwscpy(char *target, const char *source, const int len) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/fs4plugin.so ../compile/lib_FREEBSDAMD64/molfile/fs4plugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/pqrplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pqrplugin.o
>src/pqrplugin.c: In function 'get_atom_radius':
>src/pqrplugin.c:161:16: warning: variable 'type' set but not used [-Wunused-but-set-variable]
>   char *name, *type;
>                ^
>src/pqrplugin.c:161:9: warning: variable 'name' set but not used [-Wunused-but-set-variable]
>   char *name, *type;
>         ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pqrplugin.so ../compile/lib_FREEBSDAMD64/molfile/pqrplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/mol2plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mol2plugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mol2plugin.so ../compile/lib_FREEBSDAMD64/molfile/mol2plugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/gridplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gridplugin.o
>In file included from src/gridplugin.C:54:0:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>In file included from src/gridplugin.C:55:0:
>src/fortread.h:36:12: warning: 'int fort_eat_recmark(FILE*, int)' defined but not used [-Wunused-function]
> static int fort_eat_recmark(FILE *ifp, int recmarklen) {
>            ^
>src/fortread.h:55:12: warning: 'int fort_get_endian_reclen(int, int, int, int*, int*)' defined but not used [-Wunused-function]
> static int fort_get_endian_reclen(int reclen, int word0, int word1, 
>            ^
>src/fortread.h:133:13: warning: 'void strnwscpy(char*, const char*, int)' defined but not used [-Wunused-function]
> static void strnwscpy(char *target, const char *source, const int len) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gridplugin.so ../compile/lib_FREEBSDAMD64/molfile/gridplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/carplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/carplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/carplugin.so ../compile/lib_FREEBSDAMD64/molfile/carplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/mdfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mdfplugin.o
>src/mdfplugin.C: In function 'int count_mdf_bonds(const char*)':
>src/mdfplugin.C:130:7: warning: unused variable 'retval' [-Wunused-variable]
>   int retval;
>       ^
>In file included from src/hash.h:37:0,
>                 from src/mdfplugin.C:40:
>src/hash.c: At global scope:
>src/hash.c:183:21: warning: 'int hash_delete(hash_t*, const char*)' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) {
>                     ^
>src/hash.c:270:24: warning: 'char* hash_stats(hash_t*)' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) {
>                        ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mdfplugin.so ../compile/lib_FREEBSDAMD64/molfile/mdfplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/gamessplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gamessplugin.o
>src/gamessplugin.c: In function 'have_gamess':
>src/gamessplugin.c:1095:8: warning: variable 'word' set but not used [-Wunused-but-set-variable]
>   char word[3][BUFSIZ];
>        ^
>src/gamessplugin.c: In function 'get_basis_stats':
>src/gamessplugin.c:2245:8: warning: variable 'word' set but not used [-Wunused-but-set-variable]
>   char word[7][BUFSIZ];
>        ^
>src/gamessplugin.c: In function 'get_wavefunction':
>src/gamessplugin.c:3548:8: warning: variable 'word' set but not used [-Wunused-but-set-variable]
>   char word[6][BUFSIZ];
>        ^
>In file included from src/gamessplugin.c:155:0:
>src/gamessplugin.c: At top level:
>src/qmplugin.h:890:12: warning: 'iswhiteline' defined but not used [-Wunused-function]
> static int iswhiteline(char *s) {
>            ^
>src/qmplugin.h:896:14: warning: 'strtoupper' defined but not used [-Wunused-function]
> static char *strtoupper(char *s) {
>              ^
>src/qmplugin.h:1072:13: warning: 'thisline' defined but not used [-Wunused-function]
> static void thisline(FILE *file) {
>             ^
>src/qmplugin.h:1092:13: warning: 'whereami' defined but not used [-Wunused-function]
> static void whereami(FILE *file) {
>             ^
>src/qmplugin.h:580:13: warning: 'print_matrix4' defined but not used [-Wunused-function]
> static void print_matrix4(const float mat[16]) {
>             ^
>src/qmplugin.h:1023:12: warning: 'fpexpftoc' defined but not used [-Wunused-function]
> static int fpexpftoc(char *ftocstr) {
>            ^
>In file included from src/gamessplugin.c:157:0:
>src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
> static const char *get_pte_label(const int idx)
>                    ^
>src/periodic_table.h:102:14: warning: 'get_pte_mass' defined but not used [-Wunused-function]
> static float get_pte_mass(const int idx)
>              ^
>src/periodic_table.h:109:14: warning: 'get_pte_vdw_radius' defined but not used [-Wunused-function]
> static float get_pte_vdw_radius(const int idx)
>              ^
>src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>src/gamessplugin.c:991:13: warning: 'print_input_data' defined but not used [-Wunused-function]
> static void print_input_data(qmdata_t *data) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gamessplugin.so ../compile/lib_FREEBSDAMD64/molfile/gamessplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/xsfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xsfplugin.o
>In file included from src/xsfplugin.C:32:0:
>src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xsfplugin.so ../compile/lib_FREEBSDAMD64/molfile/xsfplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/bgfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/bgfplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/bgfplugin.so ../compile/lib_FREEBSDAMD64/molfile/bgfplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/xbgfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xbgfplugin.o
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xbgfplugin.so ../compile/lib_FREEBSDAMD64/molfile/xbgfplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/jsplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/jsplugin.o
>src/jsplugin.c: In function 'read_js_structure':
>src/jsplugin.c:398:16: warning: unused variable 'bszmask' [-Wunused-variable]
>     fio_size_t bszmask;
>                ^
>In file included from src/hash.h:37:0,
>                 from src/jsplugin.c:82:
>src/jsplugin.c: At top level:
>src/hash.c:183:21: warning: 'hash_delete' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) {
>                     ^
>src/hash.c:270:24: warning: 'hash_stats' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) {
>                        ^
>In file included from src/jsplugin.c:83:0:
>src/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'swap4_unaligned' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'swap8_unaligned' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/jsplugin.so ../compile/lib_FREEBSDAMD64/molfile/jsplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/dtrplugin.cxx -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dtrplugin.o
>src/dtrplugin.cxx: In member function 'bool desres::molfile::Timekeys::init(const string&)':
>src/dtrplugin.cxx:483:48: warning: format '%d' expects argument of type 'int', but argument 2 has type 'uint64_t {aka long unsigned int}' [-Wformat=]
>                     keys[i].size(), m_framesize);
>                                                ^
>src/dtrplugin.cxx:483:48: warning: format '%d' expects argument of type 'int', but argument 3 has type 'uint64_t {aka long unsigned int}' [-Wformat=]
>In file included from src/dtrplugin.cxx:65:0:
>src/vmddir.h: At global scope:
>src/vmddir.h:132:12: warning: 'int vmd_file_is_executable(const char*)' defined but not used [-Wunused-function]
> static int vmd_file_is_executable(const char * filename) {
>            ^
>In file included from src/dtrplugin.cxx:66:0:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:110:13: warning: 'void swap4_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dtrplugin.so ../compile/lib_FREEBSDAMD64/molfile/dtrplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall  -I../include -Isrc -c src/maeffplugin.cxx -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/maeffplugin.o
>src/maeffplugin.cxx: In function 'int {anonymous}::write_structure(void*, int, const molfile_atom_t*)':
>src/maeffplugin.cxx:1878:9: warning: unused variable 'last_ctnumber' [-Wunused-variable]
>     int last_ctnumber = -1;
>         ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/maeffplugin.so ../compile/lib_FREEBSDAMD64/molfile/maeffplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I../include -Isrc -c src/basissetplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/basissetplugin.o
>In file included from src/basissetplugin.c:37:0:
>src/qmplugin.h:706:12: warning: 'symmetry_expand' defined but not used [-Wunused-function]
> static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms, 
>            ^
>src/qmplugin.h:830:13: warning: 'eatline' defined but not used [-Wunused-function]
> static void eatline(FILE * fd, int n)
>             ^
>src/qmplugin.h:841:13: warning: 'eatwhitelines' defined but not used [-Wunused-function]
> static void eatwhitelines(FILE *file) {
>             ^
>src/qmplugin.h:890:12: warning: 'iswhiteline' defined but not used [-Wunused-function]
> static int iswhiteline(char *s) {
>            ^
>src/qmplugin.h:896:14: warning: 'strtoupper' defined but not used [-Wunused-function]
> static char *strtoupper(char *s) {
>              ^
>src/qmplugin.h:957:12: warning: 'goto_keyline' defined but not used [-Wunused-function]
> static int goto_keyline(FILE *file, ...) {
>            ^
>src/qmplugin.h:1001:12: warning: 'have_keyline' defined but not used [-Wunused-function]
> static int have_keyline(FILE *file, const char *keystring1,
>            ^
>src/qmplugin.h:1072:13: warning: 'thisline' defined but not used [-Wunused-function]
> static void thisline(FILE *file) {
>             ^
>src/qmplugin.h:1092:13: warning: 'whereami' defined but not used [-Wunused-function]
> static void whereami(FILE *file) {
>             ^
>src/qmplugin.h:433:18: warning: 'init_qmdata' defined but not used [-Wunused-function]
> static qmdata_t* init_qmdata(qmdata_t *data) {
>                  ^
>src/qmplugin.h:466:27: warning: 'add_wavefunction' defined but not used [-Wunused-function]
> static qm_wavefunction_t* add_wavefunction(qm_timestep_t *ts) {
>                           ^
>src/qmplugin.h:485:13: warning: 'replace_wavefunction' defined but not used [-Wunused-function]
> static void replace_wavefunction(qm_timestep_t *ts, int n) {
>             ^
>src/qmplugin.h:502:13: warning: 'del_wavefunction' defined but not used [-Wunused-function]
> static void del_wavefunction(qm_timestep_t *ts) {
>             ^
>src/qmplugin.h:535:13: warning: 'angular_momentum_expon' defined but not used [-Wunused-function]
> static void angular_momentum_expon(int  *ang_mom_expon,
>             ^
>src/qmplugin.h:580:13: warning: 'print_matrix4' defined but not used [-Wunused-function]
> static void print_matrix4(const float mat[16]) {
>             ^
>src/qmplugin.h:1023:12: warning: 'fpexpftoc' defined but not used [-Wunused-function]
> static int fpexpftoc(char *ftocstr) {
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/basissetplugin.so ../compile/lib_FREEBSDAMD64/molfile/basissetplugin.o  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I/usr/local/include/tcl8.5 -I../include -Isrc -c src/webpdbplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/webpdbplugin.o
>In file included from src/webpdbplugin.c:23:0:
>src/readpdb.h:39:12: warning: 'read_pdb_record' defined but not used [-Wunused-function]
> static int read_pdb_record(FILE *f, char *retStr) {
>            ^
>src/readpdb.h:348:12: warning: 'write_raw_pdb_record' defined but not used [-Wunused-function]
> static int write_raw_pdb_record(FILE *fd, const char *recordname,
>            ^
>In file included from src/webpdbplugin.c:24:0:
>src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
> static const char *get_pte_label(const int idx)
>                    ^
>src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/webpdbplugin.so ../compile/lib_FREEBSDAMD64/molfile/webpdbplugin.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molfile_plugin' ããåºã¾ã
>cd molfile_plugin; gmake staticlibs && cd .. || exit 1
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molfile_plugin' ã«å¥ãã¾ã
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_abinitplugin" -c src/abinitplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/abinitplugin-s.o
>In file included from src/abinitplugin.c:65:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_biomoccaplugin" -c src/biomoccaplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/biomoccaplugin-s.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_cpmdplugin" -c src/cpmdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cpmdplugin-s.o
>src/cpmdplugin.c:84:12: warning: 'read_cpmd_structure' defined but not used [-Wunused-function]
> static int read_cpmd_structure(void *mydata, int *optflags, 
>            ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_psfplugin" -c src/psfplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/psfplugin-s.o
>src/psfplugin.c: In function 'write_psf_structure':
>src/psfplugin.c:643:19: warning: variable 'atomname' set but not used [-Wunused-but-set-variable]
>       const char *atomname; 
>                   ^
>In file included from src/fortread.h:28:0,
>                 from src/psfplugin.c:24:
>src/psfplugin.c: At top level:
>src/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'swap4_unaligned' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'swap8_unaligned' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'swap2_aligned' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'swap8_aligned' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>In file included from src/psfplugin.c:24:0:
>src/fortread.h:36:12: warning: 'fort_eat_recmark' defined but not used [-Wunused-function]
> static int fort_eat_recmark(FILE *ifp, int recmarklen) {
>            ^
>src/fortread.h:55:12: warning: 'fort_get_endian_reclen' defined but not used [-Wunused-function]
> static int fort_get_endian_reclen(int reclen, int word0, int word1, 
>            ^
>src/fortread.h:103:12: warning: 'fortread_4' defined but not used [-Wunused-function]
> static int fortread_4(void *dest, int n, int swap, FILE *fd) {
>            ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_pdbplugin" -c src/pdbplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pdbplugin-s.o
>In file included from src/pdbplugin.c:27:0:
>src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_dcdplugin" -c src/dcdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dcdplugin-s.o
>In file included from src/dcdplugin.c:46:0:
>src/fastio.h:468:12: warning: 'fio_read_int32' defined but not used [-Wunused-function]
> static int fio_read_int32(fio_fd fd, int *i) {
>            ^
>src/fastio.h:472:12: warning: 'fio_write_str' defined but not used [-Wunused-function]
> static int fio_write_str(fio_fd fd, const char *str) {
>            ^
>In file included from src/dcdplugin.c:55:0:
>src/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'swap2_aligned' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_babelplugin" -c src/babelplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/babelplugin-s.o
>In file included from src/babelplugin.c:36:0:
>src/readpdb.h:187:13: warning: 'get_pdb_header' defined but not used [-Wunused-function]
> static void get_pdb_header(const char *record, char *pdbcode, char *date,
>             ^
>src/readpdb.h:207:13: warning: 'get_pdb_conect' defined but not used [-Wunused-function]
> static void get_pdb_conect(const char *record, int natoms, int *idxmap,
>             ^
>src/readpdb.h:348:12: warning: 'write_raw_pdb_record' defined but not used [-Wunused-function]
> static int write_raw_pdb_record(FILE *fd, const char *recordname,
>            ^
>In file included from src/babelplugin.c:37:0:
>src/vmddir.h:132:12: warning: 'vmd_file_is_executable' defined but not used [-Wunused-function]
> static int vmd_file_is_executable(const char * filename) {
>            ^
>In file included from src/babelplugin.c:38:0:
>src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
> static const char *get_pte_label(const int idx)
>                    ^
>src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>src/babelplugin.c:319:20: warning: 'openbabel11type_from_name' defined but not used [-Wunused-function]
> static const char *openbabel11type_from_name(const char *name) {
>                    ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_gromacsplugin" -c src/gromacsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gromacsplugin-s.o
>In file included from src/gromacsplugin.C:25:0:
>src/Gromacs.h: In function 'int mdio_timestep(md_file*, md_ts*)':
>src/Gromacs.h:1853:53: warning: 'bitsizeint[2]' may be used uninitialized in this function [-Wmaybe-uninitialized]
>    thiscoord[2] = xtc_receivebits(buf, bitsizeint[2]);
>                                                     ^
>src/Gromacs.h:1764:37: note: 'bitsizeint[2]' was declared here
>  unsigned sizeint[3], sizesmall[3], bitsizeint[3], size3;
>                                     ^
>src/Gromacs.h:1852:53: warning: 'bitsizeint[1]' may be used uninitialized in this function [-Wmaybe-uninitialized]
>    thiscoord[1] = xtc_receivebits(buf, bitsizeint[1]);
>                                                     ^
>src/Gromacs.h:1764:37: note: 'bitsizeint[1]' was declared here
>  unsigned sizeint[3], sizesmall[3], bitsizeint[3], size3;
>                                     ^
>src/Gromacs.h:1851:53: warning: 'bitsizeint[0]' may be used uninitialized in this function [-Wmaybe-uninitialized]
>    thiscoord[0] = xtc_receivebits(buf, bitsizeint[0]);
>                                                     ^
>src/Gromacs.h:1764:37: note: 'bitsizeint[0]' was declared here
>  unsigned sizeint[3], sizesmall[3], bitsizeint[3], size3;
>                                     ^
>In file included from src/Gromacs.h:48:0,
>                 from src/gromacsplugin.C:25:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_parmplugin" -c src/parmplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parmplugin-s.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_crdplugin" -c src/crdplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/crdplugin-s.o
>src/crdplugin.c: In function 'write_crd_timestep':
>src/crdplugin.c:162:6: warning: 'lfdone' may be used uninitialized in this function [-Wmaybe-uninitialized]
>   if (!lfdone)
>      ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_namdbinplugin" -c src/namdbinplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/namdbinplugin-s.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_binposplugin" -c src/binposplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/binposplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_graspplugin" -c src/graspplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/graspplugin-s.o
>In file included from src/graspplugin.C:35:0:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_msmsplugin" -c src/msmsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/msmsplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_stlplugin" -c src/stlplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/stlplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_offplugin" -c src/offplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/offplugin-s.o
>src/offplugin.C: In function 'int read_rawgraphics(void*, int*, const molfile_graphics_t**)':
>src/offplugin.C:145:7: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized]
>       if (j < k + 1 || k < 3)
>       ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_edmplugin" -c src/edmplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/edmplugin-s.o
>src/edmplugin.C: In function 'int read_edm_data(void*, int, float*, float*)':
>src/edmplugin.C:202:10: warning: unused variable 'l' [-Wunused-variable]
>   int z, l, sentinel, convcnt;
>          ^
>src/edmplugin.C:215:7: warning: unused variable 'leftover' [-Wunused-variable]
>   int leftover = (nperslice - (nlines - 1) * 6);
>       ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_ccp4plugin" -c src/ccp4plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/ccp4plugin-s.o
>src/ccp4plugin.C: In function 'int read_ccp4_data(void*, int, float*, float*)':
>src/ccp4plugin.C:365:68: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>       if ( fread(rowdata, sizeof(float), extent[0], fd) != extent[0] ) {
>                                                                    ^
>In file included from src/ccp4plugin.C:39:0:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_dsn6plugin" -c src/dsn6plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dsn6plugin-s.o
>In file included from src/dsn6plugin.C:58:0:
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:110:13: warning: 'void swap4_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_brixplugin" -c src/brixplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/brixplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_pltplugin" -c src/pltplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pltplugin-s.o
>src/pltplugin.C: In function 'int read_plt_data(void*, int, float*, float*)':
>src/pltplugin.C:138:54: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>   if ( fread(datablock, sizeof(float), ndata, fd) != ndata ) {
>                                                      ^
>In file included from src/pltplugin.C:37:0:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_cubeplugin" -c src/cubeplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/cubeplugin-s.o
>In file included from src/cubeplugin.C:37:0:
>src/periodic_table.h:133:12: warning: 'int get_pte_idx(const char*)' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_raster3dplugin" -c src/raster3dplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/raster3dplugin-s.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_rst7plugin" -c src/rst7plugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/rst7plugin-s.o
>src/rst7plugin.c: In function 'open_rst_read':
>src/rst7plugin.c:38:11: warning: variable 'timesteprst' set but not used [-Wunused-but-set-variable]
>   double  timesteprst;
>           ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_parm7plugin" -c src/parm7plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/parm7plugin-s.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vtfplugin" -c src/vtfplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vtfplugin-s.o
>src/vtfplugin.c: In function 'vtf_parse_atom':
>src/vtfplugin.c:229:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[16]' [-Wformat=]
>       if (sscanf(s, "%16s %n", &atom.name, &n) < 1) {
>       ^
>src/vtfplugin.c:238:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[16]' [-Wformat=]
>       if (sscanf(s, "%16s %n", &atom.type, &n) < 1) {
>       ^
>src/vtfplugin.c:264:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[8]' [-Wformat=]
>  if (sscanf(s, "%8s %n", &atom.resname, &n) < 1) {
>  ^
>src/vtfplugin.c:279:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[8]' [-Wformat=]
>       if (sscanf(s, "%8s %n", &atom.segid, &n) < 1) {
>       ^
>src/vtfplugin.c:288:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat=]
>       if (sscanf(s, "%2s %n", &atom.insertion, &n) < 1) {
>       ^
>src/vtfplugin.c:300:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat=]
>  if (sscanf(s, "%2s %n", &atom.chain, &n) < 1) {
>  ^
>src/vtfplugin.c:334:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat=]
>  if (sscanf(s, "%2s %n", &atom.altloc, &n) < 1) {
>  ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_xyzplugin" -c src/xyzplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xyzplugin-s.o
>In file included from src/xyzplugin.c:52:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_tinkerplugin" -c src/tinkerplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/tinkerplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_uhbdplugin" -c src/uhbdplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/uhbdplugin-s.o
>src/uhbdplugin.C: In function 'void* open_uhbd_read(const char*, const char*, int*)':
>src/uhbdplugin.C:85:22: warning: variable 'o' set but not used [-Wunused-but-set-variable]
>   float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3];
>                      ^
>src/uhbdplugin.C:85:28: warning: variable 's' set but not used [-Wunused-but-set-variable]
>   float orig[3], ra, o[3], s[3]; //xdelta[3], ydelta[3], zdelta[3];
>                            ^
>src/uhbdplugin.C: In function 'int read_uhbd_data(void*, int, float*, float*)':
>src/uhbdplugin.C:249:69: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>       if (fread(datablock + z*xysize, sizeof(float), xysize, fd) != xysize) {
>                                                                     ^
>In file included from src/uhbdplugin.C:42:0:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspchgcarplugin" -c src/vaspchgcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspchgcarplugin-s.o
>In file included from src/vaspchgcarplugin.c:36:0:
>src/vaspplugin.h:111:13: warning: 'vasp_timestep_unitcell' defined but not used [-Wunused-function]
> static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
>             ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspparchgplugin" -c src/vaspparchgplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspparchgplugin-s.o
>In file included from src/vaspparchgplugin.c:36:0:
>src/vaspplugin.h:111:13: warning: 'vasp_timestep_unitcell' defined but not used [-Wunused-function]
> static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data)
>             ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspposcarplugin" -c src/vaspposcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspposcarplugin-s.o
>In file included from src/vaspposcarplugin.c:35:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspoutcarplugin" -c src/vaspoutcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspoutcarplugin-s.o
>In file included from src/vaspoutcarplugin.c:35:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspxdatcarplugin" -c src/vaspxdatcarplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxdatcarplugin-s.o
>In file included from src/vaspxdatcarplugin.c:35:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_vaspxmlplugin" -c src/vaspxmlplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/vaspxmlplugin-s.o
>In file included from src/vaspxmlplugin.c:42:0:
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_dlpolyplugin" -c src/dlpolyplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dlpolyplugin-s.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_lammpsplugin" -c src/lammpsplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/lammpsplugin-s.o
>src/lammpsplugin.c: In function 'read_lammps_structure':
>src/lammpsplugin.c:772:44: warning: unused variable 'has_diameter' [-Wunused-variable]
>     int has_element, has_mass, has_radius, has_diameter;
>                                            ^
>In file included from src/lammpsplugin.c:63:0:
>src/lammpsplugin.c: At top level:
>src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
> static const char *get_pte_label(const int idx)
>                    ^
>src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>In file included from src/hash.h:37:0,
>                 from src/lammpsplugin.c:69:
>src/hash.c:183:21: warning: 'hash_delete' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) {
>                     ^
>src/hash.c:270:24: warning: 'hash_stats' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) {
>                        ^
>In file included from src/inthash.h:40:0,
>                 from src/lammpsplugin.c:70:
>src/inthash.c:182:21: warning: 'inthash_delete' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC int inthash_delete(inthash_t *tptr, int key) {
>                     ^
>src/inthash.c:269:24: warning: 'inthash_stats' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC char * inthash_stats(inthash_t *tptr) {
>                        ^
>src/lammpsplugin.c: In function 'read_lammps_timestep':
>src/lammpsplugin.c:1201:38: warning: 'ylohi' may be used uninitialized in this function [-Wmaybe-uninitialized]
>           ts->coords[addr + 1] += iy * ylohi + iz * yz;
>                                      ^
>src/lammpsplugin.c: In function 'read_lammps_structure':
>src/lammpsplugin.c:599:11: warning: 'idlist' may be used uninitialized in this function [-Wmaybe-uninitialized]
>       free(idlist);
>           ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_corplugin" -c src/corplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/corplugin-s.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_moldenplugin" -c src/moldenplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/moldenplugin-s.o
>src/moldenplugin.c: In function 'read_molden_rundata':
>src/moldenplugin.c:580:25: warning: variable 'hessian_data' set but not used [-Wunused-but-set-variable]
>   molfile_qm_hessian_t *hessian_data;
>                         ^
>src/moldenplugin.c: In function 'get_basis':
>src/moldenplugin.c:823:36: warning: unused variable 's_coeff2' [-Wunused-variable]
>  char s_expon[128], s_coeff1[128], s_coeff2[128];
>                                    ^
>src/moldenplugin.c:823:21: warning: unused variable 's_coeff1' [-Wunused-variable]
>  char s_expon[128], s_coeff1[128], s_coeff2[128];
>                     ^
>src/moldenplugin.c:823:7: warning: unused variable 's_expon' [-Wunused-variable]
>  char s_expon[128], s_coeff1[128], s_coeff2[128];
>       ^
>In file included from src/moldenplugin.c:32:0:
>src/moldenplugin.c: At top level:
>src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
> static const char *get_pte_label(const int idx)
>                    ^
>src/periodic_table.h:102:14: warning: 'get_pte_mass' defined but not used [-Wunused-function]
> static float get_pte_mass(const int idx)
>              ^
>src/periodic_table.h:109:14: warning: 'get_pte_vdw_radius' defined but not used [-Wunused-function]
> static float get_pte_vdw_radius(const int idx)
>              ^
>src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>In file included from src/moldenplugin.c:33:0:
>src/qmplugin.h:706:12: warning: 'symmetry_expand' defined but not used [-Wunused-function]
> static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms, 
>            ^
>src/qmplugin.h:1001:12: warning: 'have_keyline' defined but not used [-Wunused-function]
> static int have_keyline(FILE *file, const char *keystring1,
>            ^
>src/qmplugin.h:1072:13: warning: 'thisline' defined but not used [-Wunused-function]
> static void thisline(FILE *file) {
>             ^
>src/qmplugin.h:1092:13: warning: 'whereami' defined but not used [-Wunused-function]
> static void whereami(FILE *file) {
>             ^
>src/qmplugin.h:485:13: warning: 'replace_wavefunction' defined but not used [-Wunused-function]
> static void replace_wavefunction(qm_timestep_t *ts, int n) {
>             ^
>src/qmplugin.h:502:13: warning: 'del_wavefunction' defined but not used [-Wunused-function]
> static void del_wavefunction(qm_timestep_t *ts) {
>             ^
>src/qmplugin.h:580:13: warning: 'print_matrix4' defined but not used [-Wunused-function]
> static void print_matrix4(const float mat[16]) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_phiplugin" -c src/phiplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/phiplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_pbeqplugin" -c src/pbeqplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pbeqplugin-s.o
>src/pbeqplugin.C: In function 'int read_pbeq_data(void*, int, float*, float*)':
>src/pbeqplugin.C:257:55: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>           printf("pbeqplugin) offset: %d\n", ftell(fd));
>                                                       ^
>In file included from src/pbeqplugin.C:48:0:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_grdplugin" -c src/grdplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/grdplugin-s.o
>In file included from src/grdplugin.C:46:0:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_situsplugin" -c src/situsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/situsplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_dxplugin" -c src/dxplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dxplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_spiderplugin" -c src/spiderplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/spiderplugin-s.o
>src/spiderplugin.C: In function 'int read_spider_data(void*, int, float*, float*)':
>src/spiderplugin.C:272:7: warning: unused variable 'x' [-Wunused-variable]
>   int x, y, z, xsize, ysize, zsize, xysize, total;
>       ^
>src/spiderplugin.C:272:10: warning: unused variable 'y' [-Wunused-variable]
>   int x, y, z, xsize, ysize, zsize, xysize, total;
>          ^
>src/spiderplugin.C:272:13: warning: unused variable 'z' [-Wunused-variable]
>   int x, y, z, xsize, ysize, zsize, xysize, total;
>             ^
>In file included from src/spiderplugin.C:31:0:
>src/endianswap.h: At global scope:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_mapplugin" -c src/mapplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mapplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_avsplugin" -c src/avsplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/avsplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_fs4plugin" -c src/fs4plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/fs4plugin-s.o
>In file included from src/fs4plugin.C:42:0:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>In file included from src/fs4plugin.C:43:0:
>src/fortread.h:36:12: warning: 'int fort_eat_recmark(FILE*, int)' defined but not used [-Wunused-function]
> static int fort_eat_recmark(FILE *ifp, int recmarklen) {
>            ^
>src/fortread.h:55:12: warning: 'int fort_get_endian_reclen(int, int, int, int*, int*)' defined but not used [-Wunused-function]
> static int fort_get_endian_reclen(int reclen, int word0, int word1, 
>            ^
>src/fortread.h:133:13: warning: 'void strnwscpy(char*, const char*, int)' defined but not used [-Wunused-function]
> static void strnwscpy(char *target, const char *source, const int len) {
>             ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_pqrplugin" -c src/pqrplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/pqrplugin-s.o
>src/pqrplugin.c: In function 'get_atom_radius':
>src/pqrplugin.c:161:16: warning: variable 'type' set but not used [-Wunused-but-set-variable]
>   char *name, *type;
>                ^
>src/pqrplugin.c:161:9: warning: variable 'name' set but not used [-Wunused-but-set-variable]
>   char *name, *type;
>         ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_mol2plugin" -c src/mol2plugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mol2plugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_gridplugin" -c src/gridplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gridplugin-s.o
>In file included from src/gridplugin.C:54:0:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>In file included from src/gridplugin.C:55:0:
>src/fortread.h:36:12: warning: 'int fort_eat_recmark(FILE*, int)' defined but not used [-Wunused-function]
> static int fort_eat_recmark(FILE *ifp, int recmarklen) {
>            ^
>src/fortread.h:55:12: warning: 'int fort_get_endian_reclen(int, int, int, int*, int*)' defined but not used [-Wunused-function]
> static int fort_get_endian_reclen(int reclen, int word0, int word1, 
>            ^
>src/fortread.h:133:13: warning: 'void strnwscpy(char*, const char*, int)' defined but not used [-Wunused-function]
> static void strnwscpy(char *target, const char *source, const int len) {
>             ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_carplugin" -c src/carplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/carplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_mdfplugin" -c src/mdfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/mdfplugin-s.o
>src/mdfplugin.C: In function 'int count_mdf_bonds(const char*)':
>src/mdfplugin.C:130:7: warning: unused variable 'retval' [-Wunused-variable]
>   int retval;
>       ^
>In file included from src/hash.h:37:0,
>                 from src/mdfplugin.C:40:
>src/hash.c: At global scope:
>src/hash.c:183:21: warning: 'int hash_delete(hash_t*, const char*)' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) {
>                     ^
>src/hash.c:270:24: warning: 'char* hash_stats(hash_t*)' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) {
>                        ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_gamessplugin" -c src/gamessplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/gamessplugin-s.o
>src/gamessplugin.c: In function 'have_gamess':
>src/gamessplugin.c:1095:8: warning: variable 'word' set but not used [-Wunused-but-set-variable]
>   char word[3][BUFSIZ];
>        ^
>src/gamessplugin.c: In function 'get_basis_stats':
>src/gamessplugin.c:2245:8: warning: variable 'word' set but not used [-Wunused-but-set-variable]
>   char word[7][BUFSIZ];
>        ^
>src/gamessplugin.c: In function 'get_wavefunction':
>src/gamessplugin.c:3548:8: warning: variable 'word' set but not used [-Wunused-but-set-variable]
>   char word[6][BUFSIZ];
>        ^
>In file included from src/gamessplugin.c:155:0:
>src/gamessplugin.c: At top level:
>src/qmplugin.h:890:12: warning: 'iswhiteline' defined but not used [-Wunused-function]
> static int iswhiteline(char *s) {
>            ^
>src/qmplugin.h:896:14: warning: 'strtoupper' defined but not used [-Wunused-function]
> static char *strtoupper(char *s) {
>              ^
>src/qmplugin.h:1072:13: warning: 'thisline' defined but not used [-Wunused-function]
> static void thisline(FILE *file) {
>             ^
>src/qmplugin.h:1092:13: warning: 'whereami' defined but not used [-Wunused-function]
> static void whereami(FILE *file) {
>             ^
>src/qmplugin.h:580:13: warning: 'print_matrix4' defined but not used [-Wunused-function]
> static void print_matrix4(const float mat[16]) {
>             ^
>src/qmplugin.h:1023:12: warning: 'fpexpftoc' defined but not used [-Wunused-function]
> static int fpexpftoc(char *ftocstr) {
>            ^
>In file included from src/gamessplugin.c:157:0:
>src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
> static const char *get_pte_label(const int idx)
>                    ^
>src/periodic_table.h:102:14: warning: 'get_pte_mass' defined but not used [-Wunused-function]
> static float get_pte_mass(const int idx)
>              ^
>src/periodic_table.h:109:14: warning: 'get_pte_vdw_radius' defined but not used [-Wunused-function]
> static float get_pte_vdw_radius(const int idx)
>              ^
>src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>src/gamessplugin.c:991:13: warning: 'print_input_data' defined but not used [-Wunused-function]
> static void print_input_data(qmdata_t *data) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_xsfplugin" -c src/xsfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xsfplugin-s.o
>In file included from src/xsfplugin.C:32:0:
>src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_bgfplugin" -c src/bgfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/bgfplugin-s.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_xbgfplugin" -c src/xbgfplugin.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/xbgfplugin-s.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_jsplugin" -c src/jsplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/jsplugin-s.o
>src/jsplugin.c: In function 'read_js_structure':
>src/jsplugin.c:398:16: warning: unused variable 'bszmask' [-Wunused-variable]
>     fio_size_t bszmask;
>                ^
>In file included from src/hash.h:37:0,
>                 from src/jsplugin.c:82:
>src/jsplugin.c: At top level:
>src/hash.c:183:21: warning: 'hash_delete' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) {
>                     ^
>src/hash.c:270:24: warning: 'hash_stats' defined but not used [-Wunused-function]
> VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) {
>                        ^
>In file included from src/jsplugin.c:83:0:
>src/endianswap.h:32:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:46:13: warning: 'swap4_unaligned' defined but not used [-Wunused-function]
> static void swap4_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:65:13: warning: 'swap8_unaligned' defined but not used [-Wunused-function]
> static void swap8_unaligned(void *v, long ndata) {
>             ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_maeffplugin" -c src/maeffplugin.cxx -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/maeffplugin-s.o
>src/maeffplugin.cxx: In function 'int {anonymous}::write_structure(void*, int, const molfile_atom_t*)':
>src/maeffplugin.cxx:1878:9: warning: unused variable 'last_ctnumber' [-Wunused-variable]
>     int last_ctnumber = -1;
>         ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_dtrplugin" -c src/dtrplugin.cxx -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/dtrplugin-s.o
>src/dtrplugin.cxx: In member function 'bool desres::molfile::Timekeys::init(const string&)':
>src/dtrplugin.cxx:483:48: warning: format '%d' expects argument of type 'int', but argument 2 has type 'uint64_t {aka long unsigned int}' [-Wformat=]
>                     keys[i].size(), m_framesize);
>                                                ^
>src/dtrplugin.cxx:483:48: warning: format '%d' expects argument of type 'int', but argument 3 has type 'uint64_t {aka long unsigned int}' [-Wformat=]
>In file included from src/dtrplugin.cxx:65:0:
>src/vmddir.h: At global scope:
>src/vmddir.h:132:12: warning: 'int vmd_file_is_executable(const char*)' defined but not used [-Wunused-function]
> static int vmd_file_is_executable(const char * filename) {
>            ^
>In file included from src/dtrplugin.cxx:66:0:
>src/endianswap.h:32:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_unaligned(void *v, long ndata) {
>             ^
>src/endianswap.h:96:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap2_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:110:13: warning: 'void swap4_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap4_aligned(void *v, long ndata) {
>             ^
>src/endianswap.h:124:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function]
> static void swap8_aligned(void *v, long ndata) {
>             ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -D"VMDPLUGIN=molfile_basissetplugin" -c src/basissetplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/basissetplugin-s.o
>In file included from src/basissetplugin.c:37:0:
>src/qmplugin.h:706:12: warning: 'symmetry_expand' defined but not used [-Wunused-function]
> static int symmetry_expand(qm_atom_t **atoms, int numunique, int natoms, 
>            ^
>src/qmplugin.h:830:13: warning: 'eatline' defined but not used [-Wunused-function]
> static void eatline(FILE * fd, int n)
>             ^
>src/qmplugin.h:841:13: warning: 'eatwhitelines' defined but not used [-Wunused-function]
> static void eatwhitelines(FILE *file) {
>             ^
>src/qmplugin.h:890:12: warning: 'iswhiteline' defined but not used [-Wunused-function]
> static int iswhiteline(char *s) {
>            ^
>src/qmplugin.h:896:14: warning: 'strtoupper' defined but not used [-Wunused-function]
> static char *strtoupper(char *s) {
>              ^
>src/qmplugin.h:957:12: warning: 'goto_keyline' defined but not used [-Wunused-function]
> static int goto_keyline(FILE *file, ...) {
>            ^
>src/qmplugin.h:1001:12: warning: 'have_keyline' defined but not used [-Wunused-function]
> static int have_keyline(FILE *file, const char *keystring1,
>            ^
>src/qmplugin.h:1072:13: warning: 'thisline' defined but not used [-Wunused-function]
> static void thisline(FILE *file) {
>             ^
>src/qmplugin.h:1092:13: warning: 'whereami' defined but not used [-Wunused-function]
> static void whereami(FILE *file) {
>             ^
>src/qmplugin.h:433:18: warning: 'init_qmdata' defined but not used [-Wunused-function]
> static qmdata_t* init_qmdata(qmdata_t *data) {
>                  ^
>src/qmplugin.h:466:27: warning: 'add_wavefunction' defined but not used [-Wunused-function]
> static qm_wavefunction_t* add_wavefunction(qm_timestep_t *ts) {
>                           ^
>src/qmplugin.h:485:13: warning: 'replace_wavefunction' defined but not used [-Wunused-function]
> static void replace_wavefunction(qm_timestep_t *ts, int n) {
>             ^
>src/qmplugin.h:502:13: warning: 'del_wavefunction' defined but not used [-Wunused-function]
> static void del_wavefunction(qm_timestep_t *ts) {
>             ^
>src/qmplugin.h:535:13: warning: 'angular_momentum_expon' defined but not used [-Wunused-function]
> static void angular_momentum_expon(int  *ang_mom_expon,
>             ^
>src/qmplugin.h:580:13: warning: 'print_matrix4' defined but not used [-Wunused-function]
> static void print_matrix4(const float mat[16]) {
>             ^
>src/qmplugin.h:1023:12: warning: 'fpexpftoc' defined but not used [-Wunused-function]
> static int fpexpftoc(char *ftocstr) {
>            ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -D"STATIC_PLUGIN" -I../include -Isrc -I/usr/local/include/tcl8.5 -D"VMDPLUGIN=molfile_webpdbplugin" -c src/webpdbplugin.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/molfile/webpdbplugin-s.o
>In file included from src/webpdbplugin.c:23:0:
>src/readpdb.h:39:12: warning: 'read_pdb_record' defined but not used [-Wunused-function]
> static int read_pdb_record(FILE *f, char *retStr) {
>            ^
>src/readpdb.h:348:12: warning: 'write_raw_pdb_record' defined but not used [-Wunused-function]
> static int write_raw_pdb_record(FILE *fd, const char *recordname,
>            ^
>In file included from src/webpdbplugin.c:24:0:
>src/periodic_table.h:95:20: warning: 'get_pte_label' defined but not used [-Wunused-function]
> static const char *get_pte_label(const int idx)
>                    ^
>src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>rm -f ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.a 
>ar cr ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.a ../compile/lib_FREEBSDAMD64/molfile/abinitplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/biomoccaplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/cpmdplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/psfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/pdbplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/dcdplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/babelplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/gromacsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/parmplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/crdplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/namdbinplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/binposplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/graspplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/msmsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/stlplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/offplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/edmplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/ccp4plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/dsn6plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/brixplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/pltplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/cubeplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/raster3dplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/rst7plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/parm7plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vtfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/xyzplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/tinkerplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/uhbdplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspchgcarplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspparchgplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspposcarplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspoutcarplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspxdatcarplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/vaspxmlplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/dlpolyplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/lammpsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/corplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/moldenplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/phiplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/pbeqplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/grdplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/situsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/dxplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/spiderplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/mapplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/avsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/fs4plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/pqrplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/mol2plugin-s.o ../compile/lib_FREEBSDAMD64/molfile/gridplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/carplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/mdfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/gamessplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/xsfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/bgfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/xbgfplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/jsplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/maeffplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/dtrplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/basissetplugin-s.o ../compile/lib_FREEBSDAMD64/molfile/webpdbplugin-s.o 
>touch ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.a
>rm -f ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.h
>touch ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.h
>../create_static_header.sh MOLFILE molfile ../compile/lib_FREEBSDAMD64/molfile/libmolfile_plugin.h abinitplugin biomoccaplugin cpmdplugin psfplugin pdbplugin dcdplugin babelplugin gromacsplugin parmplugin crdplugin namdbinplugin binposplugin graspplugin msmsplugin stlplugin offplugin cubeplugin edmplugin ccp4plugin dsn6plugin brixplugin pltplugin raster3dplugin parm7plugin rst7plugin tinkerplugin uhbdplugin vaspchgcarplugin vaspparchgplugin vaspposcarplugin vaspoutcarplugin vaspxdatcarplugin vaspxmlplugin dlpolyplugin lammpsplugin vtfplugin xyzplugin corplugin moldenplugin phiplugin pbeqplugin grdplugin situsplugin dxplugin spiderplugin mapplugin avsplugin fs4plugin pqrplugin mol2plugin gridplugin carplugin mdfplugin gamessplugin xsfplugin bgfplugin xbgfplugin jsplugin maeffplugin dtrplugin basissetplugin webpdbplugin
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molfile_plugin' ããåºã¾ã
>for dir in apbsrun atomedit autoimd autoionize autopsf bignum biocore catdcd cgtools chirality cionize cispeptide cliptool clonerep colorscalebar contactmap dataimport demomaster dipwatch dowser exectool extendedpdb fftk gofrgui heatmapper hbonds hesstrans idatm ilstools imdmenu inorganicbuilder irspecgui mdff membrane mergestructs molefacture moltoptools multimolanim multiplot multitext mutator namdenergy namdgui namdplot namdserver nanotube navfly navigate networkview nmwiz optimization palettetool paratool parsefep pbctools pdbtool plumed pmepot propka psfgen qmtool ramaplot readcharmmpar readcharmmtop remote resptool rnaview rmsd rmsdtt rmsdvt ruler runante runsqm saltbr signalproc solvate ssrestraints stingtool symmetrytool timeline topotools trunctraj utilities vdna viewchangerender viewmaster volmapgui volutil vmddebug vmdmovie vmdtkcon zoomseq blast clustalw libbiokit multiseq multiseqdialog phylotree psipred seqdata seqedit stamp ; do cd $dir && gmake dynlibs && cd .. || exit 1 ; done
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/apbsrun' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/apbsrun' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/atomedit' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/atomedit' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoimd' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoimd' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoionize' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoionize' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autopsf' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../molfile_plugin/src -c src/psfatom.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfatom.o
>In file included from src/psfatom.C:5:0:
>../molfile_plugin/src/periodic_table.h:102:14: warning: 'float get_pte_mass(int)' defined but not used [-Wunused-function]
> static float get_pte_mass(const int idx)
>              ^
>../molfile_plugin/src/periodic_table.h:109:14: warning: 'float get_pte_vdw_radius(int)' defined but not used [-Wunused-function]
> static float get_pte_vdw_radius(const int idx)
>              ^
>../molfile_plugin/src/periodic_table.h:133:12: warning: 'int get_pte_idx(const char*)' defined but not used [-Wunused-function]
> static int get_pte_idx(const char *label)
>            ^
>../molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../molfile_plugin/src -c src/psfcheck.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfcheck.o
>src/psfcheck.C: In function 'int psfupdate(char*, char*, char*)':
>src/psfcheck.C:198:26: warning: array subscript is above array bounds [-Warray-bounds]
>    strncpy(segname,pos,4);
>                          ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../molfile_plugin/src -c src/psfreslist.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfreslist.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../molfile_plugin/src -c src/psfres.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfres.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../molfile_plugin/src -c src/psftype.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psftype.o
>In file included from src/psftype.C:5:0:
>../molfile_plugin/src/periodic_table.h:109:14: warning: 'float get_pte_vdw_radius(int)' defined but not used [-Wunused-function]
> static float get_pte_vdw_radius(const int idx)
>              ^
>../molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function]
> static int get_pte_idx_from_string(const char *label) {
>            ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../molfile_plugin/src -c src/psftypelist.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psftypelist.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../molfile_plugin/src -c src/psfbond.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfbond.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../molfile_plugin/src -c src/psfatomlist.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfatomlist.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../molfile_plugin/src -c src/psfcheck_wrap.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfcheck_wrap.o
>src/psfcheck_wrap.C: In function 'void SWIG_Tcl_Acquire(void*)':
>src/psfcheck_wrap.C:427:18: warning: variable 'entryPtr' set but not used [-Wunused-but-set-variable]
>   Tcl_HashEntry *entryPtr;
>                  ^
>src/psfcheck_wrap.C: At global scope:
>src/psfcheck_wrap.C:39:30: warning: 'swig_type_info* SWIG_Tcl_TypeDynamicCast(swig_type_info*, void**)' defined but not used [-Wunused-function]
> #define SWIG_TypeDynamicCast SWIG_Tcl_TypeDynamicCast
>                              ^
>src/psfcheck_wrap.C:200:1: note: in expansion of macro 'SWIG_TypeDynamicCast'
> SWIG_TypeDynamicCast(swig_type_info *ty, void **ptr) {
> ^
>src/psfcheck_wrap.C:40:30: warning: 'const char* SWIG_Tcl_TypeName(const swig_type_info*)' defined but not used [-Wunused-function]
> #define SWIG_TypeName        SWIG_Tcl_TypeName
>                              ^
>src/psfcheck_wrap.C:212:1: note: in expansion of macro 'SWIG_TypeName'
> SWIG_TypeName(const swig_type_info *ty) {
> ^
>src/psfcheck_wrap.C:41:30: warning: 'swig_type_info* SWIG_Tcl_TypeQuery(const char*)' defined but not used [-Wunused-function]
> #define SWIG_TypeQuery       SWIG_Tcl_TypeQuery
>                              ^
>src/psfcheck_wrap.C:218:1: note: in expansion of macro 'SWIG_TypeQuery'
> SWIG_TypeQuery(const char *name) {
> ^
>src/psfcheck_wrap.C:505:1: warning: 'char* SWIG_Tcl_PointerTypeFromString(char*)' defined but not used [-Wunused-function]
> SWIG_Tcl_PointerTypeFromString(char *c) {
> ^
>src/psfcheck_wrap.C:522:1: warning: 'int SWIG_Tcl_ConvertPacked(Tcl_Interp*, Tcl_Obj*, void*, int, swig_type_info*, int)' defined but not used [-Wunused-function]
> SWIG_Tcl_ConvertPacked(Tcl_Interp *interp, Tcl_Obj *obj, void *ptr, int sz, swig_type_info *ty, int flags) {
> ^
>src/psfcheck_wrap.C:921:1: warning: 'int SWIG_Tcl_ObjectConstructor(ClientData, Tcl_Interp*, int, Tcl_Obj* const*)' defined but not used [-Wunused-function]
> SWIG_Tcl_ObjectConstructor(ClientData clientData, Tcl_Interp *interp, int objc, Tcl_Obj *CONST objv[]) {
> ^
>src/psfcheck_wrap.C:1000:1: warning: 'Tcl_Obj* SWIG_Tcl_NewInstanceObj(Tcl_Interp*, void*, swig_type_info*, int)' defined but not used [-Wunused-function]
> SWIG_Tcl_NewInstanceObj(Tcl_Interp *interp, void *thisvalue, swig_type_info *type, int flags) {
> ^
>if [ -n "" ]; \
>then  -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfcheck.so ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfatom.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfcheck.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfreslist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfres.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psftype.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psftypelist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfbond.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfatomlist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfcheck_wrap.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>else gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfcheck.so ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfatom.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfcheck.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfreslist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfres.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psftype.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psftypelist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfbond.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfatomlist.o ../compile/lib_FREEBSDAMD64/tcl/autopsf1.3/psfcheck_wrap.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>fi
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autopsf' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/bignum' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/bignum' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/biocore' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/biocore' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/catdcd' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/catdcd' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cgtools' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cgtools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/chirality' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/chirality' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cionize' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cionize' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cispeptide' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cispeptide' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cliptool' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cliptool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clonerep' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clonerep' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/colorscalebar' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/colorscalebar' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/contactmap' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/contactmap' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dataimport' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dataimport' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/demomaster' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/demomaster' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dipwatch' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dipwatch' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dowser' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dowser' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/exectool' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/exectool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/extendedpdb' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/extendedpdb' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/fftk' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/fftk' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/gofrgui' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/gofrgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/heatmapper' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/heatmapper' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hbonds' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hbonds' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hesstrans' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmat1.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat1.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmat2.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat2.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmat3.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat3.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmat4.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat4.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmat5.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat5.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmat6.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat6.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmat7.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat7.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmat8.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat8.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmat9.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat9.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmatex.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatex.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/bandmat.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/bandmat.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/submat.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/submat.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/myexcept.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/myexcept.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/cholesky.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/cholesky.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/evalue.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/evalue.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/fft.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/fft.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/hholder.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hholder.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/jacobi.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/jacobi.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newfft.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newfft.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/sort.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/sort.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/svd.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/svd.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/newmatrm.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatrm.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -g -Isrc -c src/hesstrans.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.o
>src/hesstrans.C: In function 'void getBMatrix(Real**, int, bondCoord**, int, angleCoord**, int, dihedralCoord**, int, improperCoord**, int, Matrix&)':
>src/hesstrans.C:346:8: warning: variable 'angle142' set but not used [-Wunused-but-set-variable]
>   Real angle142 = 0.0;   // Angle in radians
>        ^
>src/hesstrans.C:347:8: warning: variable 'angle143' set but not used [-Wunused-but-set-variable]
>   Real angle143 = 0.0;   // Angle in radians
>        ^
>src/hesstrans.C:348:8: warning: variable 'angle243' set but not used [-Wunused-but-set-variable]
>   Real angle243 = 0.0;   // Angle in radians
>        ^
>src/hesstrans.C: In function 'int getNormalModes(double**, double*, double*, int, double*, double*, int&, int)':
>src/hesstrans.C:642:18: warning: 'Rcom[1]' may be used uninitialized in this function [-Wmaybe-uninitialized]
>   Rcom[1] /= mtot;
>                  ^
>src/hesstrans.C:643:18: warning: 'Rcom[2]' may be used uninitialized in this function [-Wmaybe-uninitialized]
>   Rcom[2] /= mtot;
>                  ^
>src/hesstrans.C:641:18: warning: 'Rcom[0]' may be used uninitialized in this function [-Wmaybe-uninitialized]
>   Rcom[0] /= mtot;
>                  ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -g -I/usr/local/include/tcl8.5 -Isrc -D_FREEBSDAMD64 -DHESSTRANSTCLDLL_EXPORTS -c src/tcl_hesstrans.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/tcl_hesstrans.o
>if [ -n "" ]; \
>then  -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.so ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat1.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat2.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat3.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat4.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat5.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat6.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat7.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat8.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat9.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatex.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/bandmat.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/submat.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/myexcept.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/cholesky.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/evalue.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/fft.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hholder.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/jacobi.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newfft.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/sort.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/svd.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatrm.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/tcl_hesstrans.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>else gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.so ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat1.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat2.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat3.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat4.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat5.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat6.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat7.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat8.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmat9.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatex.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/bandmat.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/submat.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/myexcept.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/cholesky.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/evalue.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/fft.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hholder.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/jacobi.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newfft.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/sort.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/svd.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/newmatrm.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.o ../compile/lib_FREEBSDAMD64/tcl/hesstrans1.0/tcl_hesstrans.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>fi
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hesstrans' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/idatm' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/idatm' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ilstools' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ilstools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/imdmenu' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/imdmenu' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/inorganicbuilder' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/inorganicbuilder' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/irspecgui' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/irspecgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mdff' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mdff' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/membrane' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/membrane' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mergestructs' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mergestructs' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molefacture' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molefacture' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/moltoptools' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/moltoptools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multimolanim' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multimolanim' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiplot' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiplot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multitext' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multitext' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mutator' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/mutator1.4
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc  -c src/libalchemify.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/libalchemify.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I/usr/local/include/tcl8.5 -Isrc  -c src/alchemify_tcl_wrap.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/alchemify_tcl_wrap.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc  -c src/alchemify_tcl.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/alchemify_tcl.o
>if [ -n "" ]; \
>then  -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/libalchemify.so ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/libalchemify.o ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/alchemify_tcl_wrap.o ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/alchemify_tcl.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>else gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/libalchemify.so ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/libalchemify.o ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/alchemify_tcl_wrap.o ../compile/lib_FREEBSDAMD64/tcl/mutator1.4/alchemify_tcl.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>fi
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mutator' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdenergy' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdenergy' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdgui' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdplot' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdplot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdserver' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdserver' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nanotube' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nanotube' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navfly' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navfly' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navigate' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navigate' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/networkview' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/networkview' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nmwiz' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nmwiz' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/optimization' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/optimization' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/palettetool' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/palettetool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/paratool' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/paratool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/parsefep' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/parsefep' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pbctools' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pbctools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pdbtool' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pdbtool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/plumed' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/plumed' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pmepot' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/pmepot.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pmepot.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/gridcharges.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/gridcharges.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/recipspace.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/recipspace.o
>src/recipspace.c: In function 'compute_energy':
>src/recipspace.c:153:42: warning: variable 'vir' set but not used [-Wunused-but-set-variable]
>           float m3, m33, xp3, msq, imsq, vir, fac;
>                                          ^
>src/recipspace.c:224:33: warning: variable 'vir' set but not used [-Wunused-but-set-variable]
>           float xp3, msq, imsq, vir, fac;
>                                 ^
>src/recipspace.c:295:33: warning: variable 'vir' set but not used [-Wunused-but-set-variable]
>           float xp3, msq, imsq, vir, fac;
>                                 ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/dxfile.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/dxfile.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/pub3dfft.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pub3dfft.o
>src/pub3dfft.c: In function 'passb':
>src/pub3dfft.c:25:64: warning: variable 'nt' set but not used [-Wunused-but-set-variable]
>     static int idij, idlj, idot, ipph, i, j, k, l, jc, lc, ik, nt, idj, 
>                                                                ^
>src/pub3dfft.c: In function 'passf':
>src/pub3dfft.c:654:64: warning: variable 'nt' set but not used [-Wunused-but-set-variable]
>     static int idij, idlj, idot, ipph, i, j, k, l, jc, lc, ik, nt, idj, 
>                                                                ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I/usr/local/include/tcl8.5 -Isrc -D_FREEBSDAMD64 -DPMEPOTTCLDLL_EXPORTS -c src/tcl_pmepot.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/tcl_pmepot.o
>if [ -n "" ]; \
>then  -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/libpmepot.so ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pmepot.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/gridcharges.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/recipspace.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/dxfile.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pub3dfft.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/tcl_pmepot.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>else gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/libpmepot.so ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pmepot.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/gridcharges.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/recipspace.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/dxfile.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/pub3dfft.o ../compile/lib_FREEBSDAMD64/tcl/pmepot1.0/tcl_pmepot.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>fi
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pmepot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/propka' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/propka' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psfgen' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/charmm_file.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/charmm_file.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/charmm_parse_topo_defs.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/charmm_parse_topo_defs.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/extract_alias.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/extract_alias.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/hash.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/hash.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/hasharray.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/hasharray.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/memarena.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/memarena.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/pdb_file.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/pdb_file.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/pdb_file_extract.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/pdb_file_extract.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/psf_file.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/psf_file.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/psf_file_extract.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/psf_file_extract.o
>src/psf_file_extract.c: In function 'psf_file_extract':
>src/psf_file_extract.c:402:18: warning: variable 'npatch' set but not used [-Wunused-but-set-variable]
>   int i, natoms, npatch;
>                  ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/stringhash.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/stringhash.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/topo_defs.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_defs.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/topo_mol.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_mol.o
>src/topo_mol.c:787:12: warning: 'topo_mol_add_cmap' defined but not used [-Wunused-function]
> static int topo_mol_add_cmap(topo_mol *mol, const topo_mol_ident_t *targets,
>            ^
>src/topo_mol.c:815:13: warning: 'topo_mol_del_cmap' defined but not used [-Wunused-function]
> static void topo_mol_del_cmap(topo_mol *mol, const topo_mol_ident_t *targets,
>             ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/topo_mol_output.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_mol_output.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/topo_mol_pluginio.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_mol_pluginio.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I/usr/local/include/tcl8.5 -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -D_FREEBSDAMD64 -DPSFGENTCLDLL_EXPORTS -c src/tcl_psfgen.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/tcl_psfgen.o
>src/tcl_psfgen.c: In function 'tcl_psfcontext':
>src/tcl_psfgen.c:359:13: warning: variable 'nd' set but not used [-Wunused-but-set-variable]
>     int nc, nd, *countptr;
>             ^
>src/tcl_psfgen.c:359:9: warning: variable 'nc' set but not used [-Wunused-but-set-variable]
>     int nc, nd, *countptr;
>         ^
>src/tcl_psfgen.c:405:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
>       if ( newdata = Tcl_GetAssocData(interp,newkey,0) ) {
>       ^
>if [ -n "" ]; \
>then  -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/libpsfgen.so ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/charmm_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/charmm_parse_topo_defs.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/extract_alias.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/hash.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/hasharray.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/memarena.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/pdb_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/pdb_file_extract.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/psf_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/psf_file_extract.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/stringhash.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_defs.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_mol.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_mol_output.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_mol_pluginio.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/tcl_psfgen.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>else gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/libpsfgen.so ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/charmm_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/charmm_parse_topo_defs.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/extract_alias.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/hash.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/hasharray.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/memarena.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/pdb_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/pdb_file_extract.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/psf_file.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/psf_file_extract.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/stringhash.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_defs.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_mol.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_mol_output.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/topo_mol_pluginio.o ../compile/lib_FREEBSDAMD64/tcl/psfgen1.6/tcl_psfgen.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>fi
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psfgen' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/qmtool' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/qmtool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ramaplot' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ramaplot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmpar' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmpar' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmtop' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmtop' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/remote' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/remote' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/resptool' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/resptool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rnaview' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rnaview' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsd' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsd' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdtt' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdtt' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdvt' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdvt' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ruler' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ruler' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runante' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runante' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runsqm' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runsqm' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/saltbr' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/saltbr' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/signalproc' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/kiss_fft.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/kiss_fft.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I/usr/local/include/tcl8.5 -Isrc -D_FREEBSDAMD64 -DFFTCMDSTCLDLL_EXPORTS -c src/tcl_fftcmds.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_fftcmds.o
>if [ -n "" ]; \
>then  -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/fftcmds.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/kiss_fft.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_fftcmds.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>else gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/fftcmds.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/kiss_fft.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_fftcmds.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>fi
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/sgsmooth.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.o
>src/sgsmooth.C: In constructor 'float_mat::float_mat(size_t, size_t, double)':
>src/sgsmooth.C:128:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (i = 0; i < rows; ++i) {
>                     ^
>src/sgsmooth.C:135:27: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t {aka long unsigned int}' [-Wformat=]
>                 rows, cols);
>                           ^
>src/sgsmooth.C:135:27: warning: format '%d' expects argument of type 'int', but argument 4 has type 'size_t {aka long unsigned int}' [-Wformat=]
>src/sgsmooth.C: In function 'void permute(float_mat&, int_vect&)':
>src/sgsmooth.C:172:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (j = 0; j < A.nr_rows(); ++j) {
>                               ^
>src/sgsmooth.C:177:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (j = 0; j < A.nr_rows(); ++j) { 
>                               ^
>src/sgsmooth.C:181:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>             for (k = j+1; k < A.nr_rows(); ++k) { 
>                                         ^
>src/sgsmooth.C: In function 'int partial_pivot(float_mat&, size_t, size_t, float_vect&, int_vect&, double)':
>src/sgsmooth.C:216:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (j = row + 1; j < A.nr_rows(); ++j) { 
>                                     ^
>src/sgsmooth.C:232:16: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     if(pivot > row) {           // bring the pivot to the diagonal
>                ^
>src/sgsmooth.C: In function 'void lu_backsubst(float_mat&, float_mat&, bool)':
>src/sgsmooth.C:254:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>             for (k = 0; k < A.nr_cols(); ++k) {
>                                       ^
>src/sgsmooth.C:259:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>             for (k = 0; k < A.nr_cols(); ++k) {
>                                       ^
>src/sgsmooth.C: In function 'void lu_forwsubst(float_mat&, float_mat&, bool)':
>src/sgsmooth.C:276:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (r = 0;r < A.nr_rows(); ++r) {
>                              ^
>src/sgsmooth.C:278:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>             for (k = 0; k < A.nr_cols(); ++k) {
>                                       ^
>src/sgsmooth.C:283:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>             for (k = 0; k < A.nr_cols(); ++k) {
>                                       ^
>src/sgsmooth.C: In function 'int lu_factorize(float_mat&, int_vect&, double)':
>src/sgsmooth.C:311:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (i = 0; i < A.nr_rows(); ++i) {
>                               ^
>src/sgsmooth.C:313:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>         for (j = 0; j < A.nr_cols(); ++j) {
>                                   ^
>src/sgsmooth.C:326:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (c = 0; c < A.nr_cols() ; ++c) {            // loop over columns
>                               ^
>src/sgsmooth.C:328:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>         for(r = 0; r < A.nr_rows(); ++r) {      //  loop over rows
>                                  ^
>src/sgsmooth.C: In function 'float_mat lin_solve(const float_mat&, const float_mat&, double)':
>src/sgsmooth.C:352:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (j = 0; j < B.nr_rows(); ++j) {
>                               ^
>src/sgsmooth.C: In function 'float_mat transpose(const float_mat&)':
>src/sgsmooth.C:387:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (i = 0; i < a.nr_rows(); ++i) {
>                               ^
>src/sgsmooth.C:388:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>         for (j = 0; j < a.nr_cols(); ++j) {
>                                   ^
>src/sgsmooth.C: In function 'float_mat operator*(const float_mat&, const float_mat&)':
>src/sgsmooth.C:406:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (i = 0; i < a.nr_rows(); ++i) {
>                               ^
>src/sgsmooth.C:407:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>         for (j = 0; j < b.nr_cols(); ++j) {
>                                   ^
>src/sgsmooth.C:409:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>             for (k = 0; k < a.nr_cols(); ++k) {
>                                       ^
>src/sgsmooth.C: In function 'float_vect sg_coeff(const float_vect&, size_t)':
>src/sgsmooth.C:429:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (i = 0; i < rows; ++i) {
>                     ^
>src/sgsmooth.C:430:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>         for (j = 0; j < cols; ++j) {
>                         ^
>src/sgsmooth.C:437:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (i = 0; i < b.size(); ++i) {
>                            ^
>src/sgsmooth.C:439:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>         for (j = 1; j <= deg; ++j) {
>                          ^
>src/sgsmooth.C: In function 'float_vect sg_smooth(const float_vect&, int, int)':
>src/sgsmooth.C:457:63: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     if ((width < 1) || (deg < 0) || (v.size() < (2 * width + 2))) {
>                                                               ^
>src/sgsmooth.C:487:44: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>         for (i = 0; i <= (v.size() - window); ++i) {
>                                            ^
>src/sgsmooth.C:518:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (i = 0; i <= (v.size() - window); ++i) {
>                                        ^
>src/sgsmooth.C: In function 'float_vect lsqr_fprime(const float_vect&, int)':
>src/sgsmooth.C:545:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (i = 0; i < b.size(); ++i) {
>                            ^
>src/sgsmooth.C: In function 'float_vect sg_derivative(const float_vect&, int, int, double)':
>src/sgsmooth.C:567:63: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     if ((width < 1) || (deg < 1) || (v.size() < (2 * width + 2))) {
>                                                               ^
>src/sgsmooth.C:600:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>     for (i = 1; i < (v.size() - window); ++i) {
>                                       ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I/usr/local/include/tcl8.5 -Isrc -D_FREEBSDAMD64 -DSGSMOOTHTCLDLL_EXPORTS -c src/tcl_sgsmooth.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_sgsmooth.o
>if [ -n "" ]; \
>then  -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_sgsmooth.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48  ; \
>else gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_sgsmooth.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85   -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>fi
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/specden.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/specden.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I/usr/local/include/tcl8.5 -Isrc -D_FREEBSDAMD64 -DSPECDENTCLDLL_EXPORTS -c src/tcl_specden.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_specden.o
>if [ -n "" ]; \
>then  -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/specden.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/specden.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_specden.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48  ; \
>else gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/specden.so ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/specden.o ../compile/lib_FREEBSDAMD64/tcl/signalproc1.1/tcl_specden.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85   -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>fi
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/signalproc' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/solvate' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/solvate' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ssrestraints' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ssrestraints' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stingtool' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stingtool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/symmetrytool' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/symmetrytool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/timeline' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/timeline' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/topotools' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/topotools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/trunctraj' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/trunctraj' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/utilities' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/utilities' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vdna' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vdna' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewchangerender' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewchangerender' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewmaster' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewmaster' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volmapgui' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volmapgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volutil' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volutil' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmddebug' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmddebug' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdmovie' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdmovie' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdtkcon' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdtkcon' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/zoomseq' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/zoomseq' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/blast' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/blast' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clustalw' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clustalw' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/libbiokit' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc/libbiokit -c src/interface/tcl_libbiokit_wrap.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit_wrap.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/interface/tcl_libbiokit.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/alignedSequence.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/alignedStructure.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/alphabet.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/alphabetBuilder.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/aminoAcidQR.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/Atom.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/AtomList.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/binaryQR.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/Contact.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/ContactList.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/ContactTools.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/coordinate3D.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/fastaReader.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/fastaWriter.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/PointerList.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/PIDTools.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/qTools.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/Residue.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o
>src/libbiokit/Residue.cpp: In constructor 'Residue::Residue(char*, char*, char*, Atom*)':
>src/libbiokit/Residue.cpp:46:1: warning: 'Residue::resNum' is initialized with itself [-Winit-self]
> Residue::Residue(char* residueName, char* rID, char* iName, Atom* atom)
> ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/rnaQR.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/sequence.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/sequenceAlignment.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/structureAlignment.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/sequenceQR.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/ShortIntList.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/structure.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/symbol.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/symbolList.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/typeConvert.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o
>if [ -n "" ]; \
>then  -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.so ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit_wrap.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>else gcc48 -shared -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.so ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit_wrap.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48; \
>fi
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/libbiokit' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseq' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseq' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseqdialog' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseqdialog' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/phylotree' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/phylotree' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psipred' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psipred' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqdata' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqdata' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqedit' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqedit' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stamp' ã«å¥ãã¾ã
>gmake[3]: 'dynlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stamp' ããåºã¾ã
>for dir in apbsrun atomedit autoimd autoionize autopsf bignum biocore catdcd cgtools chirality cionize cispeptide cliptool clonerep colorscalebar contactmap dataimport demomaster dipwatch dowser exectool extendedpdb fftk gofrgui heatmapper hbonds hesstrans idatm ilstools imdmenu inorganicbuilder irspecgui mdff membrane mergestructs molefacture moltoptools multimolanim multiplot multitext mutator namdenergy namdgui namdplot namdserver nanotube navfly navigate networkview nmwiz optimization palettetool paratool parsefep pbctools pdbtool plumed pmepot propka psfgen qmtool ramaplot readcharmmpar readcharmmtop remote resptool rnaview rmsd rmsdtt rmsdvt ruler runante runsqm saltbr signalproc solvate ssrestraints stingtool symmetrytool timeline topotools trunctraj utilities vdna viewchangerender viewmaster volmapgui volutil vmddebug vmdmovie vmdtkcon zoomseq blast clustalw libbiokit multiseq multiseqdialog phylotree psipred seqdata seqedit stamp ; do cd $dir && gmake staticlibs && cd .. || exit 1 ; done
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/apbsrun' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/apbsrun' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/atomedit' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/atomedit' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoimd' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoimd' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoionize' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoionize' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autopsf' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autopsf' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/bignum' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/bignum' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/biocore' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/biocore' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/catdcd' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/catdcd' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cgtools' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cgtools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/chirality' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/chirality' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cionize' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cionize' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cispeptide' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cispeptide' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cliptool' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cliptool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clonerep' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clonerep' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/colorscalebar' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/colorscalebar' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/contactmap' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/contactmap' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dataimport' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dataimport' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/demomaster' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/demomaster' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dipwatch' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dipwatch' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dowser' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dowser' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/exectool' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/exectool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/extendedpdb' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/extendedpdb' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/fftk' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/fftk' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/gofrgui' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/gofrgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/heatmapper' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/heatmapper' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hbonds' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hbonds' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hesstrans' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hesstrans' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/idatm' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/idatm' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ilstools' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ilstools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/imdmenu' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/imdmenu' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/inorganicbuilder' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/inorganicbuilder' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/irspecgui' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/irspecgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mdff' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mdff' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/membrane' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/membrane' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mergestructs' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mergestructs' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molefacture' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molefacture' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/moltoptools' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/moltoptools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multimolanim' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multimolanim' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiplot' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiplot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multitext' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multitext' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mutator' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mutator' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdenergy' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdenergy' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdgui' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdplot' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdplot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdserver' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdserver' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nanotube' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nanotube' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navfly' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navfly' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navigate' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navigate' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/networkview' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/networkview' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nmwiz' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nmwiz' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/optimization' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/optimization' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/palettetool' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/palettetool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/paratool' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/paratool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/parsefep' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/parsefep' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pbctools' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pbctools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pdbtool' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pdbtool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/plumed' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/plumed' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pmepot' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pmepot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/propka' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/propka' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psfgen' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psfgen' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/qmtool' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/qmtool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ramaplot' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ramaplot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmpar' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmpar' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmtop' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmtop' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/remote' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/remote' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/resptool' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/resptool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rnaview' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rnaview' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsd' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsd' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdtt' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdtt' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdvt' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdvt' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ruler' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ruler' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runante' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runante' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runsqm' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runsqm' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/saltbr' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/saltbr' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/signalproc' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/signalproc' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/solvate' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/solvate' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ssrestraints' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ssrestraints' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stingtool' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stingtool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/symmetrytool' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/symmetrytool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/timeline' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/timeline' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/topotools' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/topotools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/trunctraj' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/trunctraj' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/utilities' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/utilities' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vdna' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vdna' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewchangerender' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewchangerender' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewmaster' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewmaster' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volmapgui' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volmapgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volutil' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volutil' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmddebug' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmddebug' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdmovie' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdmovie' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdtkcon' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdtkcon' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/zoomseq' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/zoomseq' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/blast' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/blast' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clustalw' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clustalw' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/libbiokit' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/libbiokit' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseq' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseq' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseqdialog' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseqdialog' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/phylotree' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/phylotree' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psipred' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psipred' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqdata' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqdata' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqedit' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqedit' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stamp' ã«å¥ãã¾ã
>gmake[3]: 'staticlibs' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stamp' ããåºã¾ã
>for dir in molfile_plugin apbsrun atomedit autoimd autoionize autopsf bignum biocore catdcd cgtools chirality cionize cispeptide cliptool clonerep colorscalebar contactmap dataimport demomaster dipwatch dowser exectool extendedpdb fftk gofrgui heatmapper hbonds hesstrans idatm ilstools imdmenu inorganicbuilder irspecgui mdff membrane mergestructs molefacture moltoptools multimolanim multiplot multitext mutator namdenergy namdgui namdplot namdserver nanotube navfly navigate networkview nmwiz optimization palettetool paratool parsefep pbctools pdbtool plumed pmepot propka psfgen qmtool ramaplot readcharmmpar readcharmmtop remote resptool rnaview rmsd rmsdtt rmsdvt ruler runante runsqm saltbr signalproc solvate ssrestraints stingtool symmetrytool timeline topotools trunctraj utilities vdna viewchangerender viewmaster volmapgui volutil vmddebug vmdmovie vmdtkcon zoomseq blast clustalw libbiokit multiseq multiseqdialog phylotree psipred seqdata seqedit stamp ; do cd $dir && gmake bins && cd .. || exit 1 ; done
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molfile_plugin' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molfile_plugin' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/apbsrun' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/apbsrun' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/atomedit' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/atomedit' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoimd' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoimd' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoionize' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoionize' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autopsf' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autopsf' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/bignum' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/bignum' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/biocore' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/biocore' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/catdcd' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/bin/catdcd4.0
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./hash.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/catdcd4.0/hash.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./catdcd.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/catdcd4.0/catdcd.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall ../compile/lib_FREEBSDAMD64/bin/catdcd4.0/hash.o ../compile/lib_FREEBSDAMD64/bin/catdcd4.0/catdcd.o -o ../compile/lib_FREEBSDAMD64/bin/catdcd4.0/catdcd -L../compile/lib_FREEBSDAMD64/molfile -lmolfile_plugin -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -lnetcdf  -lm
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/catdcd' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cgtools' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cgtools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/chirality' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/chirality' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cionize' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/bin/cionize1.0
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./hash.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/hash.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./threads.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/threads.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./util.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/util.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./getplugins.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/getplugins.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./energythr.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/energythr.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./cionize_gridio.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_gridio.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./cionize_molfileio.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_molfileio.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./cionize_internals.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_internals.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./cionize_userio.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_userio.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_error.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_error.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_lattice.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_lattice.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_setup.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_setup.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_shortrng.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_shortrng.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_longrng.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_longrng.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_cubic.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_cubic.o
>./mgpot_cubic.c: In function 'mgpot_longrng_cubic':
>./mgpot_cubic.c:48:9: warning: unused variable 'bench_latcut_gpu' [-Wunused-variable]
>   float bench_latcut_gpu = 0;
>         ^
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5  -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./mgpot_quintic1.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_quintic1.o
>gcc48  -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -I. -I../include -I../compile/lib_FREEBSDAMD64/molfile -c ./cionize.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/hash.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/threads.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/util.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/getplugins.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/energythr.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_gridio.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_molfileio.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_internals.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize_userio.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_error.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_lattice.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_setup.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_shortrng.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_longrng.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_cubic.o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/mgpot_quintic1.o -o ../compile/lib_FREEBSDAMD64/bin/cionize1.0/cionize -L../compile/lib_FREEBSDAMD64/molfile -lmolfile_plugin -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -lnetcdf  -lm
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cionize' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cispeptide' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cispeptide' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cliptool' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cliptool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clonerep' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clonerep' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/colorscalebar' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/colorscalebar' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/contactmap' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/contactmap' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dataimport' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dataimport' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/demomaster' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/demomaster' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dipwatch' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dipwatch' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dowser' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dowser' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/exectool' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/exectool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/extendedpdb' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/extendedpdb' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/fftk' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/fftk' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/gofrgui' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/gofrgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/heatmapper' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/heatmapper' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hbonds' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hbonds' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hesstrans' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hesstrans' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/idatm' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/idatm' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ilstools' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ilstools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/imdmenu' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/imdmenu' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/inorganicbuilder' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/inorganicbuilder' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/irspecgui' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/irspecgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mdff' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mdff' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/membrane' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/membrane' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mergestructs' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mergestructs' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molefacture' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molefacture' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/moltoptools' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/moltoptools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multimolanim' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multimolanim' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiplot' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiplot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multitext' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multitext' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mutator' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mutator' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdenergy' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdenergy' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdgui' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdplot' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdplot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdserver' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdserver' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nanotube' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nanotube' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navfly' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navfly' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navigate' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navigate' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/networkview' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/networkview' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nmwiz' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nmwiz' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/optimization' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/optimization' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/palettetool' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/palettetool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/paratool' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/paratool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/parsefep' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/parsefep' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pbctools' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pbctools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pdbtool' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pdbtool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/plumed' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/plumed' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pmepot' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pmepot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/propka' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/propka' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psfgen' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psfgen' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/qmtool' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/qmtool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ramaplot' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ramaplot' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmpar' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmpar' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmtop' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmtop' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/remote' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/remote' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/resptool' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/resptool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rnaview' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/analyze.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/analyze.o
>src/analyze.c: In function 'bp_analyze':
>src/analyze.c:117:5: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>     printf("num_bp in analysis %4d  \n",num_bp);
>     ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/fpair.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/fpair.o
>src/fpair.c: In function 'all_pairs':
>src/fpair.c:139:17: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>                 sprintf(work_num, "%d_%d", i, j);
>                 ^
>src/fpair.c:139:17: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>src/fpair.c:198:29: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                             ResSeq[jr],ChainID[jr], type,pa_int, syn_i, syn_j);
>                             ^
>src/fpair.c:198:29: warning: format '%d' expects argument of type 'int', but argument 8 has type 'long int' [-Wformat=]
>src/fpair.c:223:37: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                                     ResSeq[jr],ChainID[jr], type,pa_int, syn_i, syn_j);
>                                     ^
>src/fpair.c:223:37: warning: format '%d' expects argument of type 'int', but argument 8 has type 'long int' [-Wformat=]
>src/fpair.c:251:37: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                                     ResSeq[jr],ChainID[jr], type,pa_int, syn_i, syn_j);
>                                     ^
>src/fpair.c:251:37: warning: format '%d' expects argument of type 'int', but argument 8 has type 'long int' [-Wformat=]
>src/fpair.c:293:29: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                             ChainID[jr],type, pa_int, syn_i, syn_j, corresp);
>                             ^
>src/fpair.c:293:29: warning: format '%d' expects argument of type 'int', but argument 8 has type 'long int' [-Wformat=]
>src/fpair.c:308:25: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>                         printf( "The total number of pairs %d is too large. ",num_bp); 
>                         ^
>src/fpair.c:338:17: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>                 sprintf(work_num, "%d_%d", i, j);
>                 ^
>src/fpair.c:338:17: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>src/fpair.c:351:33: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                                 ResSeq[jr],ChainID[jr],  syn_i, syn_j);
>                                 ^
>src/fpair.c:351:33: warning: format '%d' expects argument of type 'int', but argument 8 has type 'long int' [-Wformat=]
>src/fpair.c:409:33: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                                 ResSeq[jr],ChainID[jr], type,pa_int, syn_i, syn_j);
>                                 ^
>src/fpair.c:409:33: warning: format '%d' expects argument of type 'int', but argument 8 has type 'long int' [-Wformat=]
>src/fpair.c:431:33: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                                 ResSeq[jr],ChainID[jr], type,pa_int,syn_i, syn_j);
>                                 ^
>src/fpair.c:431:33: warning: format '%d' expects argument of type 'int', but argument 8 has type 'long int' [-Wformat=]
>src/fpair.c:454:33: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                                 ResSeq[jr],ChainID[jr], type,pa_int,syn_i, syn_j);
>                                 ^
>src/fpair.c:454:33: warning: format '%d' expects argument of type 'int', but argument 8 has type 'long int' [-Wformat=]
>src/fpair.c: In function 'best_pair':
>src/fpair.c:1062:10: warning: unused variable 'criteria' [-Wunused-variable]
>     char criteria[200];
>          ^
>src/fpair.c: In function 'write_best_pairs':
>src/fpair.c:1332:21: warning: format '%d' expects argument of type 'int', but argument 6 has type 'long int' [-Wformat=]
>                     j_order,marker_n, i - helix_idx[ii][1] + 1,  b1, wc, b2);
>                     ^
>src/fpair.c: In function 'single_BB_Hbond':
>src/fpair.c:2203:17: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>                 printf("%5d %5d  %4s - %4s %8.2f%8.2f\n", i, j, AtomName[m],AtomName[n],dd, dist);
>                 ^
>src/fpair.c:2203:17: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>src/fpair.c: In function 'ring_center':
>src/fpair.c:688:3: warning: 'natm' may be used uninitialized in this function [-Wmaybe-uninitialized]
>   for (m = 0; m < natm; m++) {
>   ^
>src/fpair.c: In function 'single_BB_Hbond':
>src/fpair.c:2199:16: warning: 'dist' may be used uninitialized in this function [-Wmaybe-uninitialized]
>             if ((dd = veclen(dtmp)) < dist) {
>                ^
>src/fpair.c: In function 'syn_or_anti':
>src/fpair.c:2268:27: warning: 'chi_angle' may be used uninitialized in this function [-Wmaybe-uninitialized]
>         if(chi_angle>=-90 && chi_angle <= 90 )
>                           ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/fpair_sub.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/fpair_sub.o
>src/fpair_sub.c: In function 'number_of_atoms':
>src/fpair_sub.c:196:24: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
>         if (nlen >= 54 && !strncmp(str, "ATOM", 4) 
>                        ^
>src/fpair_sub.c: In function 'read_pdb':
>src/fpair_sub.c:230:24: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
>         if (nlen >= 54 && !strncmp(str, "ATOM", 4) 
>                        ^
>src/fpair_sub.c: In function 'multiplets':
>src/fpair_sub.c:2167:24: warning: variable 'inum' set but not used [-Wunused-but-set-variable]
>     long i, inum_base, inum, is_exist, j, jr, k, m, n_unique = 0, **mtxple;
>                        ^
>src/fpair_sub.c: In function 'rot_2_lsplane':
>src/fpair_sub.c:2378:22: warning: unused variable 'inum' [-Wunused-variable]
>     long j,k,atmnum, inum=0;
>                      ^
>src/fpair_sub.c: In function 'rot_mol':
>src/fpair_sub.c:2455:30: warning: unused variable 'inum' [-Wunused-variable]
>     long i,j,k,Pnum, atmnum, inum=0;
>                              ^
>src/fpair_sub.c: In function 'ref_idx':
>src/fpair_sub.c:88:9: warning: 'ii' may be used uninitialized in this function [-Wmaybe-uninitialized]
>         return ii;
>         ^
>src/fpair_sub.c: In function 'identify_uncommon':
>src/fpair_sub.c:675:5: warning: 'c' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     return c;
>     ^
>src/fpair_sub.c: In function 'base_info':
>src/fpair_sub.c:1977:21: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     long i, ib, ie, j, k;
>                     ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/multiple.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/multiple.o
>src/multiple.c: In function 'write_multiplets':
>src/multiple.c:101:17: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>                 fprintf(fout,"%4d (%d) ", nmul+1, nstr);
>                 ^
>src/multiple.c:101:17: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>src/multiple.c: In function 'token_str':
>src/multiple.c:139:9: warning: variable 'k' set but not used [-Wunused-but-set-variable]
>     int k,i;
>         ^
>src/multiple.c: In function 'write_multiplets':
>src/multiple.c:110:25: warning: 'npair' may be used uninitialized in this function [-Wmaybe-uninitialized]
>                         for(k=0; k<npair; k++){
>                         ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/nrutil.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/nrutil.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/pair_type.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/pair_type.o
>src/pair_type.c: In function 'LW_pair_type':
>src/pair_type.c:21:14: warning: unused variable 'k' [-Wunused-variable]
>     long nh, k;
>              ^
>src/pair_type.c: In function 'get_pair_type':
>src/pair_type.c:120:19: warning: unused variable 'k' [-Wunused-variable]
>     long nh1,nh2, k;
>                   ^
>src/pair_type.c: In function 'edge_type':
>src/pair_type.c:172:17: warning: variable 'w' set but not used [-Wunused-but-set-variable]
>   long  s=0,h=0,w=0;
>                 ^
>src/pair_type.c:172:13: warning: variable 'h' set but not used [-Wunused-but-set-variable]
>   long  s=0,h=0,w=0;
>             ^
>src/pair_type.c:172:9: warning: variable 's' set but not used [-Wunused-but-set-variable]
>   long  s=0,h=0,w=0;
>         ^
>src/pair_type.c: In function 'NC_vector':
>src/pair_type.c:442:3: warning: 'natm' may be used uninitialized in this function [-Wmaybe-uninitialized]
>   for (m = 0; m < natm; m++) {
>   ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/pattern.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/pattern.o
>src/pattern.c: In function 'motif':
>src/pattern.c:55:9: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>         printf("There are only %d base pairs!!\n", nl_tot);
>         ^
>src/pattern.c:78:17: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>                 printf("String length %d is larger than (70)\n",n);
>                 ^
>src/pattern.c: In function 'pattern_search':
>src/pattern.c:278:24: warning: unused variable 'yes' [-Wunused-variable]
>     long i, j,k, nstr, yes=0, n,  nt, m, ns;
>                        ^
>src/pattern.c: In function 'reorder_patt':
>src/pattern.c:551:5: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>     fprintf(fout_tmp,"\n Number of groups -----------%d-----------\n",npatt);
>     ^
>src/pattern.c:562:17: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>                 idx_in_tmp[i]);
>                 ^
>src/pattern.c:470:18: warning: unused variable 'yes' [-Wunused-variable]
>     long i, j,k, yes=0,  m, ns;
>                  ^
>src/pattern.c: In function 'first_check':
>src/pattern.c:610:26: warning: variable 'nnew' set but not used [-Wunused-but-set-variable]
>     long i, nm, sub_yes, nnew, type_new[300], type_i, delta;
>                          ^
>src/pattern.c: In function 'further_classify':
>src/pattern.c:713:46: warning: variable 'line' set but not used [-Wunused-but-set-variable]
>     char str[100], tmp[100], inpfile[100], **line, **pair_tot;
>                                              ^
>src/pattern.c:712:26: warning: unused variable 'nns' [-Wunused-variable]
>     long **pair_tot_idx, nns=0;    
>                          ^
>src/pattern.c:711:32: warning: variable 'idx_out' set but not used [-Wunused-but-set-variable]
>     long *idx_in,*idx_in_tmp, *idx_out;    
>                                ^
>src/pattern.c:711:19: warning: variable 'idx_in_tmp' set but not used [-Wunused-but-set-variable]
>     long *idx_in,*idx_in_tmp, *idx_out;    
>                   ^
>src/pattern.c:711:11: warning: variable 'idx_in' set but not used [-Wunused-but-set-variable]
>     long *idx_in,*idx_in_tmp, *idx_out;    
>           ^
>src/pattern.c:710:34: warning: variable 'matched' set but not used [-Wunused-but-set-variable]
>     long *group_idx, *patt_idx, *matched;
>                                  ^
>src/pattern.c:708:18: warning: unused variable 'yes' [-Wunused-variable]
>     long i, j,k, yes=0, nt;
>                  ^
>src/pattern.c: In function 'user_type_patt':
>src/pattern.c:820:9: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>         fprintf(fout,"Input type:   %s (%4d)\n", type_tmp,  user_type[ng]);
>         ^
>src/pattern.c:821:9: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>         printf("Input type:  %4d  %s %4d \n",ng, type_tmp,  user_type[ng]);
>         ^
>src/pattern.c:821:9: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>src/pattern.c:920:5: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>     fprintf(fout,"Total number of matched patterns = %d \n",ns);
>     ^
>src/pattern.c: In function 'write_infor':
>src/pattern.c:932:5: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>     fprintf(fout,"-----------%d-----------\n",ns);
>     ^
>src/pattern.c: In function 'cycling':
>src/pattern.c:965:19: warning: variable 'j' set but not used [-Wunused-but-set-variable]
>     long i, n, k, j, yes, n1,n2,m;
>                   ^
>src/pattern.c:965:10: warning: unused variable 'i' [-Wunused-variable]
>     long i, n, k, j, yes, n1,n2,m;
>          ^
>src/pattern.c: In function 'get_str':
>src/pattern.c:233:12: warning: 'nl' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     *nline = nl;
>            ^
>src/pattern.c: In function 'nline':
>src/pattern.c:240:10: warning: 'nl' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     long nl;
>          ^
>src/pattern.c: In function 'check_patt':
>src/pattern.c:1122:6: warning: 'nm' may be used uninitialized in this function [-Wmaybe-uninitialized]
>    if(nm>=group_idx[n1]-4){
>      ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/ps-xy.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/ps-xy.o
>src/ps-xy.c: In function 'process_2d_fig':
>src/ps-xy.c:307:12: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>            nhelix,longest);
>            ^
>src/ps-xy.c:307:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>src/ps-xy.c:35:42: warning: unused variable 'alfa' [-Wunused-variable]
>     double **xy,**nxy,x1,y1,a=0, *slope, alfa;
>                                          ^
>src/ps-xy.c: In function 'rot_2D_to_Yaxis':
>src/ps-xy.c:443:17: warning: unused variable 'atmnum' [-Wunused-variable]
>     long i,j,k, atmnum;
>                 ^
>src/ps-xy.c:443:12: warning: unused variable 'j' [-Wunused-variable]
>     long i,j,k, atmnum;
>            ^
>src/ps-xy.c: In function 'xy4ps':
>src/ps-xy.c:495:19: warning: variable 'bbox' set but not used [-Wunused-but-set-variable]
>     long llxy[3], bbox[5];
>                   ^
>src/ps-xy.c:492:14: warning: unused variable 'frame_box' [-Wunused-variable]
>     long i,j,frame_box=0;
>              ^
>src/ps-xy.c:488:11: warning: unused variable 'format' [-Wunused-variable]
>     char *format = "%6ld%6ld";
>           ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/ps-xy-sub.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/ps-xy-sub.o
>src/ps-xy-sub.c: In function 'head_to_tail':
>src/ps-xy-sub.c:54:23: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
>         for(i++;(i<=n)&&
>                       ^
>src/ps-xy-sub.c: In function 'loop_xy':
>src/ps-xy-sub.c:745:49: warning: variable 'y2' set but not used [-Wunused-but-set-variable]
>     double  x0,y0, x01,y01, x02,y02,  x1,y1, x2,y2,  a0, b0,sign;
>                                                 ^
>src/ps-xy-sub.c:745:46: warning: variable 'x2' set but not used [-Wunused-but-set-variable]
>     double  x0,y0, x01,y01, x02,y02,  x1,y1, x2,y2,  a0, b0,sign;
>                                              ^
>src/ps-xy-sub.c: In function 'rest_bases':
>src/ps-xy-sub.c:107:11: warning: 'ntest' may be used uninitialized in this function [-Wmaybe-uninitialized]
>         if(ntest == 0){
>           ^
>src/ps-xy-sub.c: In function 'rest_pairs':
>src/ps-xy-sub.c:138:11: warning: 'ntest' may be used uninitialized in this function [-Wmaybe-uninitialized]
>         if(ntest == 0 &&(bs_pairs_tot[k][1] !=0)&&(bs_pairs_tot[k][2] !=0)){
>           ^
>src/ps-xy-sub.c: In function 'xy_base':
>src/ps-xy-sub.c:967:18: warning: 'y0' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     xy_bs[n1][2] = y0;
>                  ^
>src/ps-xy-sub.c:966:18: warning: 'x0' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     xy_bs[n1][1] = x0;
>                  ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/rnaview.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/rnaview.o
>src/rnaview.c: In function 'process_single_file':
>src/rnaview.c:135:5: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>     fprintf(fstat,"\nNumber of the total bases = %d\n", base_all);
>     ^
>src/rnaview.c: In function 'process_multiple_file':
>src/rnaview.c:252:5: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>     printf("\nNumber of structure used for calculation = %d\n", n);
>     ^
>src/rnaview.c:253:5: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>     fprintf(fstat,"\nNumber of structure used for calculation = %d\n", n);
>     ^
>src/rnaview.c:254:5: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>     fprintf(fstat,"\nNumber of the total bases = %d\n", base_all);
>     ^
>src/rnaview.c: In function 'extract_nmr_coord':
>src/rnaview.c:448:9: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>         printf("The best representative of NMR model = %d\n", model);
>         ^
>src/rnaview.c:476:13: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>             fprintf(fout,"REMARK  NMR structrue: (the best model = %d ).\n",j); 
>             ^
>src/rnaview.c:420:10: warning: unused variable 'i' [-Wunused-variable]
>     long i, j,  model;
>          ^
>src/rnaview.c: In function 'rna':
>src/rnaview.c:706:16: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>                ChainID[ seidx[ib][1]], ResSeq[ seidx[ib][1] ], ResSeq[ seidx[ie][1] ]);
>                ^
>src/rnaview.c:706:16: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>src/rnaview.c:587:18: warning: unused variable 'prot_out' [-Wunused-variable]
>     FILE *fout, *prot_out;
>                  ^
>src/rnaview.c:583:58: warning: unused variable 'nprot_atom' [-Wunused-variable]
>     long *ResSeq, *RY, **seidx, num_modify, *modify_idx, nprot_atom=0;
>                                                          ^
>src/rnaview.c:582:20: warning: variable 'n' set but not used [-Wunused-but-set-variable]
>     long i, j, k,m,n, ie, ib, dna_rna, num, num_residue, nres, bs_atoms;
>                    ^
>src/rnaview.c:579:27: warning: unused variable 'str' [-Wunused-variable]
>     char outfile[BUF512], str[BUF512];
>                           ^
>src/rnaview.c: In function 'work_horse':
>src/rnaview.c:833:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            num_pair_tot,num_residue);
>            ^
>src/rnaview.c:833:12: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>src/rnaview.c:835:12: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>            num_pair_tot,num_residue);
>            ^
>src/rnaview.c:835:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>src/rnaview.c: In function 'write_tmp_pdb':
>src/rnaview.c:1013:21: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>                     xyz[j][2], xyz[j][3]);
>                     ^
>src/rnaview.c:1013:21: warning: format '%d' expects argument of type 'int', but argument 8 has type 'long int' [-Wformat=]
>src/rnaview.c: In function 'print_sorted_pair':
>src/rnaview.c:1144:76: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
>         } else if ((strstr(str_pair[i], "W/.")||strstr(str_pair[i], "./W"))&&
>                                                                            ^
>src/rnaview.c:1150:76: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
>         } else if ((strstr(str_pair[i], "H/.")||strstr(str_pair[i], "./H"))&&
>                                                                            ^
>src/rnaview.c:1156:76: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
>         } else if ((strstr(str_pair[i], "S/.")||strstr(str_pair[i], "./S"))&&
>                                                                            ^
>src/rnaview.c:1161:76: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
>         } else if ((strstr(str_pair[i], "./.")||strstr(str_pair[i], "./."))&&
>                                                                            ^
>src/rnaview.c: In function 'process_multiple_file':
>src/rnaview.c:235:27: warning: 'resolution' may be used uninitialized in this function [-Wmaybe-uninitialized]
>                 rna_select(pdbfile, resolution, &yes);  /*set resolution limit */
>                           ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/rnaxml-new.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/rnaxml-new.o
>src/rnaxml-new.c: In function 'write_xml':
>src/rnaxml-new.c:24:33: warning: variable 'chain_nam2' set but not used [-Wunused-but-set-variable]
>     char chain_nam, chain_nam1, chain_nam2,  outfile[256];
>                                 ^
>src/rnaxml-new.c:24:21: warning: variable 'chain_nam1' set but not used [-Wunused-but-set-variable]
>     char chain_nam, chain_nam1, chain_nam2,  outfile[256];
>                     ^
>src/rnaxml-new.c: In function 'write_base_pair_int':
>src/rnaxml-new.c:252:25: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>                         tag8, i, POSITION_1_N[nres1]);
>                         ^
>src/rnaxml-new.c:260:25: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>                         tag8, j, POSITION_1_N[nres2]);
>                         ^
>src/rnaxml-new.c: In function 'xml_molecule':
>src/rnaxml-new.c:351:5: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>     fprintf(xml,"%s<molecule id=\"%d\">\n", tag1, molID);
>     ^
>src/rnaxml-new.c:355:5: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>     fprintf(xml,"%s<numbering-system id=\"%d\" used-in-file=\"false\">\n",tag3, molID);
>     ^
>src/rnaxml-new.c:357:5: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>     fprintf(xml,"%s<start>%d</start>\n",tag5, POSITION_1_N[ start ]);
>     ^
>src/rnaxml-new.c:358:5: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>     fprintf(xml,"%s<end>%d</end>\n",tag5, POSITION_1_N[ end ]);
>     ^
>src/rnaxml-new.c:363:5: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>     fprintf(xml,"%s<numbering-table length=\"%d\" comment=\"sequence number in pdb file\">\n",tag3, res_length);
>     ^
>src/rnaxml-new.c:367:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>         fprintf(xml, "%4d ",ResSeq[ seidx[i][1] ]);
>         ^
>src/rnaxml-new.c: In function 'write_helix_mol':
>src/rnaxml-new.c:558:25: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>                         tag8, chain1, POSITION_1_N[helix_left]);
>                         ^
>src/rnaxml-new.c:565:25: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>                         tag8, chain2, POSITION_1_N[helix_right]);
>                         ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/statistics.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/statistics.o
>src/statistics.c: In function 'print_edge_stat':
>src/statistics.c:62:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            100*(A[0])/sum, A[1], 100*(A[1])/sum, A[2], 100*(A[2])/sum);
>            ^
>src/statistics.c:62:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:62:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:64:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            100*(G[0])/sum, G[1], 100*(G[1])/sum, G[2], 100*(G[2])/sum);
>            ^
>src/statistics.c:64:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:64:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:66:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            100*(U[0])/sum, U[1], 100*(U[1])/sum, U[2], 100*(U[2])/sum);
>            ^
>src/statistics.c:66:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:66:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:68:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            100*(C[0])/sum, C[1], 100*(C[1])/sum, C[2], 100*(C[2])/sum);
>            ^
>src/statistics.c:68:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:68:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:70:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            100*(T[0])/sum, T[1], 100*(T[1])/sum, T[2], 100*(T[2])/sum);
>            ^
>src/statistics.c:70:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:70:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:72:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            100*(P[0])/sum, P[1], 100*(P[1])/sum, P[2], 100*(P[2])/sum);
>            ^
>src/statistics.c:72:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:72:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:74:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            100*(I[0])/sum, I[1], 100*(I[1])/sum, I[2], 100*(I[2])/sum);
>            ^
>src/statistics.c:74:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:74:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:79:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            A[2]+G[2]+I[2], 100*(A[2]+G[2]+I[2])/sum );
>            ^
>src/statistics.c:79:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:79:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:83:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            U[2]+C[2]+T[2]+P[2], 100*(U[2]+C[2]+T[2]+P[2])/sum);
>            ^
>src/statistics.c:83:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:83:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:92:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            A[0], 100*(A[0])/sumA, A[1], 100*(A[1])/sumA, A[2], 100*(A[2])/sumA);
>            ^
>src/statistics.c:92:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:92:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:94:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            G[0], 100*(G[0])/sumG, G[1], 100*(G[1])/sumG, G[2], 100*(G[2])/sumG);
>            ^
>src/statistics.c:94:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:94:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:97:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            U[0], 100*(U[0])/sumU, U[1], 100*(U[1])/sumU, U[2], 100*(U[2])/sumU);
>            ^
>src/statistics.c:97:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:97:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:99:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            C[0], 100*(C[0])/sumC, C[1], 100*(C[1])/sumC, C[2], 100*(C[2])/sumC);
>            ^
>src/statistics.c:99:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:99:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:105:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            A[2]+G[2], 100*(A[2]+G[2])/(sumA+sumG));
>            ^
>src/statistics.c:105:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:105:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:111:12: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>            U[2]+C[2], 100*(U[2]+C[2])/(sumU+sumC));
>            ^
>src/statistics.c:111:12: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:111:12: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c: In function 'print_statistic':
>src/statistics.c:143:5: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>     fprintf(fs,"Distributions from total number of pairs (%d):\n",sum);
>     ^
>src/statistics.c:146:5: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>     fprintf(fs,"The Standard W.C pairs = %5d(%4.1f%%)\n\n", type_stat_tot[1], percent);
>     ^
>src/statistics.c:151:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>         fprintf(fs,"%4d(%4.1f%%)", type_stat_tot[j], percent);
>         ^
>src/statistics.c:158:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>         fprintf(fs,"%4d(%4.1f%%)", type_stat_tot[j], percent);
>         ^
>src/statistics.c:183:13: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>             fprintf(fs,"%5d", pair_stat[j][i]);
>             ^
>src/statistics.c:190:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>         fprintf(fs,"%5d%5.1f\n", sum_16, 100*sum_16/sum2);
>         ^
>src/statistics.c:198:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>         fprintf(fs,"%5d", sum_32);
>         ^
>src/statistics.c:228:13: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>             fprintf(fs,"%5d", pair_stat[j][i]);
>             ^
>src/statistics.c:235:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>         fprintf(fs,"%5d%5.1f\n", sum_16, 100*sum_16/sum2);
>         ^
>src/statistics.c:250:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>         fprintf(fs,"%5d", sum_32);
>         ^
>src/statistics.c: In function 'write_12_family_table':
>src/statistics.c:438:17: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>                 ade[0],pa[0], ade[1],pa[1],ade[2],pa[2],ade[3],pa[3]);
>                 ^
>src/statistics.c:438:17: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:438:17: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:438:17: warning: format '%d' expects argument of type 'int', but argument 9 has type 'long int' [-Wformat=]
>src/statistics.c:440:17: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>                 cyt[0],pc[0],cyt[1],pc[1],cyt[2],pc[2],cyt[3],pc[3]);
>                 ^
>src/statistics.c:440:17: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:440:17: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:440:17: warning: format '%d' expects argument of type 'int', but argument 9 has type 'long int' [-Wformat=]
>src/statistics.c:442:17: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>                 gua[0],pg[0],gua[1],pg[1],gua[2],pg[2],gua[3],pg[3]);
>                 ^
>src/statistics.c:442:17: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:442:17: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:442:17: warning: format '%d' expects argument of type 'int', but argument 9 has type 'long int' [-Wformat=]
>src/statistics.c:444:17: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>                 ura[0],pu[0],ura[1],pu[1],ura[2],pu[2],ura[3],pu[3]);
>                 ^
>src/statistics.c:444:17: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>src/statistics.c:444:17: warning: format '%d' expects argument of type 'int', but argument 7 has type 'long int' [-Wformat=]
>src/statistics.c:444:17: warning: format '%d' expects argument of type 'int', but argument 9 has type 'long int' [-Wformat=]
>src/statistics.c: In function 'pair_type_statistics':
>src/statistics.c:801:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>         fprintf(fout, "%9d", type_stat[j]);
>         ^
>src/statistics.c:805:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>         fprintf(fout, "%9d", type_stat[j]);
>         ^
>src/statistics.c:809:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>         fprintf(fout, "%9d%9d\n", type_stat[14], type_stat[15]);
>         ^
>src/statistics.c:809:9: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>src/statistics.c: In function 'write_single_Hbond_stat':
>src/statistics.c:984:13: warning: format '%d' expects argument of type 'int *', but argument 3 has type 'long int *' [-Wformat=]
>             sscanf(str_tmp, "%d%d", &n1, &n2);
>             ^
>src/statistics.c:984:13: warning: format '%d' expects argument of type 'int *', but argument 4 has type 'long int *' [-Wformat=]
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/vrml.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/vrml.o
>src/vrml.c: In function 'output_appearance':
>src/vrml.c:596:9: warning: unused variable 'COLOR_BLACK' [-Wunused-variable]
>     int COLOR_BLACK = 0;
>         ^
>In file included from src/vrml.c:11:0:
>src/vrml.c: At top level:
>src/vrml.h:11:13: warning: 'vrml_def' declared 'static' but never defined [-Wunused-function]
> static void vrml_def(char *def);
>             ^
>src/vrml.h:18:13: warning: 'vrml_invalid_def' declared 'static' but never defined [-Wunused-function]
> static int  vrml_invalid_def(char *def);
>             ^
>src/vrml.c: In function 'draw_interact':
>src/vrml.c:385:12: warning: 'tr' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     fprintf(vrml_outfile, " tr  %.2f}\n ", tr);
>            ^
>src/vrml.c:119:39: note: 'tr' was declared here
>     double vector[4],d, rot[4], angle,tr,radius,xyz[5][4];
>                                       ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/xml2ps.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/xml2ps.o
>src/xml2ps.c: In function 'xml2ps':
>src/xml2ps.c:153:9: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>         printf("# xy: # of bases: # of O3' %d %d %d\n", nxy, nres, npo3);
>         ^
>src/xml2ps.c:153:9: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>src/xml2ps.c:153:9: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long int' [-Wformat=]
>src/xml2ps.c:185:5: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>     printf("Number of base pairs (including tertiary interactions):   %d\n", npair);
>     ^
>src/xml2ps.c:186:5: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>     printf("Number of helix (anti-parallel):   %d\n", nhelix);
>     ^
>src/xml2ps.c:187:5: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>     printf("Number of single strand:   %d\n", nsing);    
>     ^
>src/xml2ps.c:52:22: warning: unused variable 'key' [-Wunused-variable]
>     long i, j ,k ,n, key=0, nxy, *resid_idx, nchain, **chain_idx,*author_seq;
>                      ^
>src/xml2ps.c:47:38: warning: unused variable 'parfile' [-Wunused-variable]
>     char inpfile[256], outfile[256], parfile[256];
>                                      ^
>src/xml2ps.c: In function 'read_O3prime_P_xyz':
>src/xml2ps.c:312:10: warning: unused variable 'model_id' [-Wunused-variable]
>     long model_id=0;
>          ^
>src/xml2ps.c: In function 'read_xy_coord':
>src/xml2ps.c:849:49: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>                                                 printf("Warnning! nxy (%d) not equal to nposit (%d)\n",nxy,nposit);
>                                                 ^
>src/xml2ps.c:849:49: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>src/xml2ps.c: In function 'read_sugar_syn':
>src/xml2ps.c:888:27: warning: unused variable 'nposit' [-Wunused-variable]
>     long position, nxy=0, nposit=0,  model_id=0;
>                           ^
>src/xml2ps.c:888:20: warning: unused variable 'nxy' [-Wunused-variable]
>     long position, nxy=0, nposit=0,  model_id=0;
>                    ^
>src/xml2ps.c: In function 'get_sequence':
>src/xml2ps.c:1025:33: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat=]
>                                 printf("Warnning! author seqence (%d) not equal to residue number (%d)\n", nseq, *nres);
>                                 ^
>src/xml2ps.c:1025:33: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long int' [-Wformat=]
>src/xml2ps.c: In function 'label_seq_number':
>src/xml2ps.c:1617:25: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                         xy1[1], xy1[2]-4, author_seq[j]);
>                         ^
>src/xml2ps.c:1621:25: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                         xy2[1], xy2[2]-4,  author_seq[j]);
>                         ^
>src/xml2ps.c: In function 'label_seq':
>src/xml2ps.c:1654:21: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                     xy1[1], xy1[2]-4, author_seq[k1]);
>                     ^
>src/xml2ps.c:1658:21: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                     xy1[1], xy1[2]-4, author_seq[k1]);
>                     ^
>src/xml2ps.c:1662:21: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                     xy1[1], xy1[2]-4, author_seq[k1]);
>                     ^
>src/xml2ps.c:1666:21: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                     xy1[1], xy1[2]-4,author_seq[k1]);
>                     ^
>src/xml2ps.c:1674:21: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                     xy2[1], xy2[2]-4, author_seq[k1]);
>                     ^
>src/xml2ps.c:1678:21: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                     xy2[1], xy2[2]-4, author_seq[k1]);
>                     ^
>src/xml2ps.c:1682:21: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                     xy2[1], xy2[2]-4, author_seq[k1]);
>                     ^
>src/xml2ps.c:1686:21: warning: format '%d' expects argument of type 'int', but argument 5 has type 'long int' [-Wformat=]
>                     xy2[1], xy2[2]-4, author_seq[k1]);
>                     ^
>src/xml2ps.c: In function 'ps_head':
>src/xml2ps.c:2270:5: warning: implicit declaration of function 'get_BDIR' [-Wimplicit-function-declaration]
>     get_BDIR(BDIR, ps_image_par);
>     ^
>src/xml2ps.c: In function 'get_xyz_coord':
>src/xml2ps.c:395:21: warning: 'm' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     long j, n=0, k, m;
>                     ^
>src/xml2ps.c: In function 'read_bs_pair':
>src/xml2ps.c:1145:11: warning: 'n' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     *npair= n;
>           ^
>src/xml2ps.c: In function 'num_of_pair':
>src/xml2ps.c:1191:10: warning: 'nlt' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     long nlt;
>          ^
>src/xml2ps.c: In function 'get_xy_position':
>src/xml2ps.c:1327:21: warning: 'm' may be used uninitialized in this function [-Wmaybe-uninitialized]
>     long j, n=0, k, m;
>                     ^
>src/xml2ps.c: In function 'LW_shapes':
>src/xml2ps.c:1908:15: warning: 'fill' may be used uninitialized in this function [-Wmaybe-uninitialized]
>         square(psfile, fill, xy1, xy2, d3, a);
>               ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/analyze.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/fpair.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/fpair_sub.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/multiple.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/nrutil.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/pair_type.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/pattern.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/ps-xy.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/ps-xy-sub.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/rnaview.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/rnaxml-new.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/statistics.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/vrml.o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/xml2ps.o  -o ../compile/lib_FREEBSDAMD64/tcl/rnaview1.1/rnaview -lm
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rnaview' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsd' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsd' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdtt' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdtt' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdvt' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdvt' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ruler' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ruler' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runante' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runante' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runsqm' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runsqm' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/saltbr' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/saltbr' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/signalproc' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/signalproc' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/solvate' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/solvate' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ssrestraints' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ssrestraints' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stingtool' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stingtool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/symmetrytool' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/symmetrytool' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/timeline' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/timeline' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/topotools' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/topotools' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/trunctraj' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/trunctraj' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/utilities' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/utilities' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vdna' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vdna' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewchangerender' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewchangerender' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewmaster' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewmaster' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volmapgui' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volmapgui' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volutil' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/volutil1.3
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/volmap.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/volmap.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/binary_ops.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/binary_ops.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/convolutions.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/convolutions.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/unary_ops.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/unary_ops.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/voxels.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/voxels.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/ops.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/ops.o
>src/ops.C: In member function 'virtual char* RegularOps::name()':
>src/ops.C:58:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>   return "regular";
>          ^
>src/ops.C: In member function 'virtual char* PMFOps::name()':
>src/ops.C:65:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>   return "PMF";
>          ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/vec.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/vec.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/hash.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/hash.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/getplugins.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/getplugins.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/molfile.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/molfile.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/params.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/params.o
>src/params.C: In constructor 'Parameters::Parameters(int, char**)':
>src/params.C:178:8: warning: variable 'err_too_many_inputs' set but not used [-Wunused-but-set-variable]
>   bool err_too_many_inputs = false;
>        ^
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -I../include -I../compile/lib_FREEBSDAMD64/molfile -c src/main.C -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/main.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/volmap.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/binary_ops.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/convolutions.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/unary_ops.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/voxels.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/ops.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/vec.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/hash.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/getplugins.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/molfile.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/params.o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/main.o -o ../compile/lib_FREEBSDAMD64/tcl/volutil1.3/volutil -L../compile/lib_FREEBSDAMD64/molfile -lmolfile_plugin -L/usr/local/lib/tcl8.5 -L/usr/local/lib -ltcl85  -lnetcdf  -lm
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volutil' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmddebug' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmddebug' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdmovie' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdmovie' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdtkcon' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdtkcon' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/zoomseq' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/zoomseq' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/blast' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/blast' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clustalw' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/alnscore.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/alnscore.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/amenu.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/amenu.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/calcgapcoeff.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calcgapcoeff.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/calcprf1.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calcprf1.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/calcprf2.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calcprf2.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/calctree.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calctree.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/clustalw.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/clustalw.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/gcgcheck.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/gcgcheck.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/interface.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/interface.o
>src/interface.c: In function 'get_help':
>src/interface.c:1180:11: warning: variable 'number' set but not used [-Wunused-but-set-variable]
>  sint  i, number, nlines;
>           ^
>src/interface.c: In function 'startFind':
>src/interface.c:3455:6: warning: value computed is not used [-Wunused-value]
>      *s++;
>      ^
>src/interface.c: In function 'calc_percidentity':
>src/interface.c:4413:13: warning: variable 'rl' set but not used [-Wunused-but-set-variable]
>   int rs=0, rl=0;
>             ^
>src/interface.c:4413:7: warning: variable 'rs' set but not used [-Wunused-but-set-variable]
>   int rs=0, rl=0;
>       ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/malign.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/malign.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/pairalign.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/pairalign.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/prfalign.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/prfalign.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/random.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/random.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/readmat.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/readmat.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/sequence.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/sequence.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/showpair.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/showpair.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/trees.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/trees.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/util.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/util.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/alnscore.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/amenu.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calcgapcoeff.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calcprf1.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calcprf2.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/calctree.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/clustalw.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/gcgcheck.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/interface.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/malign.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/pairalign.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/prfalign.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/random.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/readmat.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/showpair.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/trees.o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/util.o -o ../compile/lib_FREEBSDAMD64/tcl/clustalw1.1/clustalw -lm
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clustalw' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/libbiokit' ã«å¥ãã¾ã
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/utils/Q.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Q.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/pdbReader.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/pdbReader.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/structureAlignmentReader.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignmentReader.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/structureQR.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureQR.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/libbiokit/rmsdTools.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsdTools.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Q.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/pdbReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/q -lm
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/utils/seqqr.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/seqqr.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/seqqr.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/pdbReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/seqqr -lm
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/utils/structqr.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structqr.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structqr.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/pdbReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structqr -lm
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/utils/qPair.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qPair.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qPair.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/pdbReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qpair -lm
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/utils/rmsd.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsd.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsd.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/pdbReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsd -lm
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc/libbiokit -c src/utils/percid.cpp -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/percid.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/percid.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedSequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alignedStructure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabet.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/alphabetBuilder.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/aminoAcidQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Atom.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/AtomList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/binaryQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Contact.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ContactTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/coordinate3D.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/fastaWriter.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PointerList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/PIDTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qTools.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/Residue.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rnaQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequence.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignment.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/sequenceQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/ShortIntList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structure.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbol.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/symbolList.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/typeConvert.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/pdbReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureAlignmentReader.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structureQR.o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsdTools.o  -o ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/percid -lm
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/libbiokit' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseq' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseq' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseqdialog' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseqdialog' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/phylotree' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/phylotree1.2
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -Isrc -c src/upgmaclu.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/phylotree1.2/upgmaclu.o
>g++48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall ../compile/lib_FREEBSDAMD64/tcl/phylotree1.2/upgmaclu.o -o ../compile/lib_FREEBSDAMD64/tcl/phylotree1.2/upgmaclu -lm
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/phylotree' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psipred' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psipred' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqdata' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqdata' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqedit' ã«å¥ãã¾ã
>gmake[3]: 'bins' ã«å¯¾ãã¦è¡ãã¹ãäºã¯ããã¾ãã.
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqedit' ããåºã¾ã
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stamp' ã«å¥ãã¾ã
>mkdir -p ../compile/lib_FREEBSDAMD64/tcl/stamp1.2
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/a3to1.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/a3to1.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/aliseq.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/aliseq.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/ccprobcalc.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/ccprobcalc.o
>src/ccprobcalc.c: In function 'ccprobcalc':
>src/ccprobcalc.c:52:12: warning: unused variable 'uval' [-Wunused-variable]
>  int upper,uval,lstrt,lstart;
>            ^
>src/ccprobcalc.c:51:16: warning: unused variable 'll' [-Wunused-variable]
>  int start,end,ll;
>                ^
>src/ccprobcalc.c:51:12: warning: unused variable 'end' [-Wunused-variable]
>  int start,end,ll;
>            ^
>src/ccprobcalc.c:51:6: warning: unused variable 'start' [-Wunused-variable]
>  int start,end,ll;
>      ^
>src/ccprobcalc.c:50:17: warning: unused variable 'k' [-Wunused-variable]
>         int i,j,k,ii,jj;
>                 ^
>src/ccprobcalc.c:52:17: warning: 'lstrt' may be used uninitialized in this function [-Wmaybe-uninitialized]
>  int upper,uval,lstrt,lstart;
>                 ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/closefile.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/closefile.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/count_domain.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/count_domain.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/display_align.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/display_align.o
>src/display_align.c: In function 'display_align':
>src/display_align.c:50:10: warning: unused variable 'k' [-Wunused-variable]
>  int i,j,k;
>          ^
>src/display_align.c:50:8: warning: unused variable 'j' [-Wunused-variable]
>  int i,j,k;
>        ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/dosort.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/dosort.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/get_clust.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/get_clust.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/getdomain.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getdomain.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/getdsspsum.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getdsspsum.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/getfile.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getfile.o
>src/getfile.c: In function 'getfile':
>src/getfile.c:61:7: warning: variable 'a' set but not used [-Wunused-but-set-variable]
>  char a;
>       ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/getks.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getks.o
>src/getks.c: In function 'getks':
>src/getks.c:46:18: warning: variable 'count' set but not used [-Wunused-but-set-variable]
>  int /*include,*/count;
>                  ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/getsec.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getsec.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/gjnoc.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/gjnoc.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/gjutil.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/gjutil.o
>src/gjutil.c: In function 'GJsubchar':
>src/gjutil.c:411:14: warning: variable 'nchar' set but not used [-Wunused-but-set-variable]
>  int /*j,*/i,nchar;
>              ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/idist.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/idist.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/igetca.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/igetca.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/igetcadssp.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/igetcadssp.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/ltou.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/ltou.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/makeafile.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/makeafile.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/matfit.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matfit.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/matinv.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matinv.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/matmult.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matmult.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/murzin_P.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/murzin_P.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/newoutput.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/newoutput.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/openfile.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/openfile.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/pairfit.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairfit.o
>src/pairfit.c: In function 'pairfit':
>src/pairfit.c:69:12: warning: variable 'rmsold' set but not used [-Wunused-but-set-variable]
>      float rmsold;
>            ^
>src/pairfit.c:60:19: warning: variable 'started2' set but not used [-Wunused-but-set-variable]
>      int started1,started2;
>                   ^
>src/pairfit.c:60:10: warning: variable 'started1' set but not used [-Wunused-but-set-variable]
>      int started1,started2;
>          ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/pairpath.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairpath.o
>src/pairpath.c: In function 'pairpath':
>src/pairpath.c:49:16: warning: variable 'match' set but not used [-Wunused-but-set-variable]
>   int i,j,k,q, match;
>                ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/pairwise.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairwise.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/printmat.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/printmat.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/printmat2.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/printmat2.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/probcalc.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/probcalc.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/probplot.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/probplot.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/qkfit.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/qkfit.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/readtree.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/readtree.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/reval.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/reval.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/revmatmult.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/revmatmult.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/rossmann.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/rossmann.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/roughfit.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/roughfit.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/scan.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/scan.o
>src/scan.c: In function 'scan':
>src/scan.c:75:20: warning: variable 'irms' set but not used [-Wunused-but-set-variable]
>    float score,rms,irms;
>                    ^
>src/scan.c:57:8: warning: variable 'first' set but not used [-Wunused-but-set-variable]
>    int first;
>        ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/sec_content.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/sec_content.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/slow_scan.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/slow_scan.o
>src/slow_scan.c: In function 'slow_scan':
>src/slow_scan.c:407:34: warning: operation on '*(qdomain.aa + (sizetype)qdomain.ncoords)' may be undefined [-Wsequence-point]
>       qdomain.aa[qdomain.ncoords]=qdomain.aa[qdomain.ncoords]='\0';
>                                  ^
>src/slow_scan.c:144:10: warning: variable 'test' set but not used [-Wunused-but-set-variable]
>    float test;
>          ^
>src/slow_scan.c:140:20: warning: variable 'irms' set but not used [-Wunused-but-set-variable]
>    float score,rms,irms;
>                    ^
>src/slow_scan.c:118:8: warning: variable 'first' set but not used [-Wunused-but-set-variable]
>    int first;
>        ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/stamp.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/stamp.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/stampgetpars.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/stampgetpars.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/sw7ccs.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/sw7ccs.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/swstruc.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/swstruc.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/testfile.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/testfile.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/treefit.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treefit.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/treepath.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treepath.o
>src/treepath.c: In function 'treepath':
>src/treepath.c:85:7: warning: variable 'match' set but not used [-Wunused-but-set-variable]
>   int match, allen,total;
>       ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/treewise.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treewise.o
>src/treewise.c: In function 'treewise':
>src/treewise.c:71:7: warning: variable 'nclust' set but not used [-Wunused-but-set-variable]
>   int nclust;
>       ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/update.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/update.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 -Isrc -c src/utol.c -fPIC -m64 -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/utol.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -O2 -Wall -I/usr/local/include/tcl8.5 ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/a3to1.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/aliseq.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/ccprobcalc.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/closefile.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/count_domain.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/display_align.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/dosort.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/get_clust.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getdomain.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getdsspsum.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getfile.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getks.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/getsec.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/gjnoc.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/gjutil.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/idist.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/igetca.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/igetcadssp.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/ltou.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/makeafile.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matfit.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matinv.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/matmult.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/murzin_P.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/newoutput.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/openfile.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairfit.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairpath.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/pairwise.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/printmat.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/printmat2.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/probcalc.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/probplot.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/qkfit.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/readtree.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/reval.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/revmatmult.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/rossmann.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/roughfit.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/scan.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/sec_content.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/slow_scan.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/stamp.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/stampgetpars.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/sw7ccs.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/swstruc.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/testfile.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treefit.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treepath.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/treewise.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/update.o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/utol.o -o ../compile/lib_FREEBSDAMD64/tcl/stamp1.2/stamp -lm
>gmake[3]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stamp' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins' ããåºã¾ã
>Populating distribution directory with compiled plugins
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/include
>for header in vmdplugin.h molfile_plugin.h vmdconio.h; do cp -p include/$header /usr/ports/science/vmd/work/vmd-1.9.1/plugins/include || exit 1 ; done
>for dir in molfile_plugin apbsrun atomedit autoimd autoionize autopsf bignum biocore catdcd cgtools chirality cionize cispeptide cliptool clonerep colorscalebar contactmap dataimport demomaster dipwatch dowser exectool extendedpdb fftk gofrgui heatmapper hbonds hesstrans idatm ilstools imdmenu inorganicbuilder irspecgui mdff membrane mergestructs molefacture moltoptools multimolanim multiplot multitext mutator namdenergy namdgui namdplot namdserver nanotube navfly navigate networkview nmwiz optimization palettetool paratool parsefep pbctools pdbtool plumed pmepot propka psfgen qmtool ramaplot readcharmmpar readcharmmtop remote resptool rnaview rmsd rmsdtt rmsdvt ruler runante runsqm saltbr signalproc solvate ssrestraints stingtool symmetrytool timeline topotools trunctraj utilities vdna viewchangerender viewmaster volmapgui volutil vmddebug vmdmovie vmdtkcon zoomseq blast clustalw libbiokit multiseq multiseqdialog phylotree psipred seqdata seqedit stamp ; do cd $dir && gmake distrib && cd .. || exit 1 ; done
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molfile_plugin' ã«å¥ãã¾ã
>Copying molfile plugins to /usr/ports/science/vmd/work/vmd-1.9.1/plugins destination area
>for file in abinitplugin.so biomoccaplugin.so cpmdplugin.so psfplugin.so pdbplugin.so dcdplugin.so babelplugin.so gromacsplugin.so parmplugin.so crdplugin.so namdbinplugin.so binposplugin.so graspplugin.so msmsplugin.so stlplugin.so offplugin.so cubeplugin.so edmplugin.so ccp4plugin.so dsn6plugin.so brixplugin.so pltplugin.so raster3dplugin.so parm7plugin.so rst7plugin.so tinkerplugin.so uhbdplugin.so vaspchgcarplugin.so vaspparchgplugin.so vaspposcarplugin.so vaspoutcarplugin.so vaspxdatcarplugin.so vaspxmlplugin.so dlpolyplugin.so lammpsplugin.so vtfplugin.so xyzplugin.so corplugin.so moldenplugin.so phiplugin.so pbeqplugin.so grdplugin.so situsplugin.so dxplugin.so spiderplugin.so mapplugin.so avsplugin.so fs4plugin.so pqrplugin.so mol2plugin.so gridplugin.so carplugin.so mdfplugin.so gamessplugin.so xsfplugin.so bgfplugin.so xbgfplugin.so jsplugin.so dtrplugin.so maeffplugin.so basissetplugin.so webpdbplugin.so netcdfplugin.so hoomdplugin.so dmsplugin.so libmolfile_plugin.a libmolfile_plugin.h libmolfile_plugin.lib libmolfile_plugin.h ; do \
>	echo "    $file ..."; \
>	for localname in `find ../compile -name $file -print`; do \
>		pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>		dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>		mkdir -p $dir; \
>		cp -p $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>	done; \
>done;
>    abinitplugin.so ...
>    biomoccaplugin.so ...
>    cpmdplugin.so ...
>    psfplugin.so ...
>    pdbplugin.so ...
>    dcdplugin.so ...
>    babelplugin.so ...
>    gromacsplugin.so ...
>    parmplugin.so ...
>    crdplugin.so ...
>    namdbinplugin.so ...
>    binposplugin.so ...
>    graspplugin.so ...
>    msmsplugin.so ...
>    stlplugin.so ...
>    offplugin.so ...
>    cubeplugin.so ...
>    edmplugin.so ...
>    ccp4plugin.so ...
>    dsn6plugin.so ...
>    brixplugin.so ...
>    pltplugin.so ...
>    raster3dplugin.so ...
>    parm7plugin.so ...
>    rst7plugin.so ...
>    tinkerplugin.so ...
>    uhbdplugin.so ...
>    vaspchgcarplugin.so ...
>    vaspparchgplugin.so ...
>    vaspposcarplugin.so ...
>    vaspoutcarplugin.so ...
>    vaspxdatcarplugin.so ...
>    vaspxmlplugin.so ...
>    dlpolyplugin.so ...
>    lammpsplugin.so ...
>    vtfplugin.so ...
>    xyzplugin.so ...
>    corplugin.so ...
>    moldenplugin.so ...
>    phiplugin.so ...
>    pbeqplugin.so ...
>    grdplugin.so ...
>    situsplugin.so ...
>    dxplugin.so ...
>    spiderplugin.so ...
>    mapplugin.so ...
>    avsplugin.so ...
>    fs4plugin.so ...
>    pqrplugin.so ...
>    mol2plugin.so ...
>    gridplugin.so ...
>    carplugin.so ...
>    mdfplugin.so ...
>    gamessplugin.so ...
>    xsfplugin.so ...
>    bgfplugin.so ...
>    xbgfplugin.so ...
>    jsplugin.so ...
>    dtrplugin.so ...
>    maeffplugin.so ...
>    basissetplugin.so ...
>    webpdbplugin.so ...
>    netcdfplugin.so ...
>    hoomdplugin.so ...
>    dmsplugin.so ...
>    libmolfile_plugin.a ...
>    libmolfile_plugin.h ...
>    libmolfile_plugin.lib ...
>    libmolfile_plugin.h ...
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molfile_plugin' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/apbsrun' ã«å¥ãã¾ã
>Copying apbsrun 1.3 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/apbsrun1.3
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/apbsrun1.3 
>cp apbsrun.tcl pkgIndex.tcl radii.dat /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/apbsrun1.3 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/apbsrun' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/atomedit' ã«å¥ãã¾ã
>Copying atomedit 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/atomedit1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/atomedit1.0 
>cp atomedit.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/atomedit1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/atomedit' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoimd' ã«å¥ãã¾ã
>Copying autoimd 1.7 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/autoimd1.7
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/autoimd1.7 
>cp -f autoimd.tcl autoimd-settings.tcl autoimd-api.tcl autoimd-gui.tcl pkgIndex.tcl autoimd-template.namd doc/ug.pdf namdrun.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/autoimd1.7 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoimd' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoionize' ã«å¥ãã¾ã
>Copying autoionize 1.3 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/autoionize1.3
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/autoionize1.3 
>cp autoionize.tcl autoionizegui.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/autoionize1.3 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autoionize' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autopsf' ã«å¥ãã¾ã
>for localname in `find ../compile -name psfcheck.so -print` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	cp $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>	cp autopsf.tcl pkgIndex.tcl $dir ; \
>done
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/autopsf' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/bignum' ã«å¥ãã¾ã
>Copying bignum 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/bignum1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/bignum1.0 
>cp bignum.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/bignum1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/bignum' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/biocore' ã«å¥ãã¾ã
>Copying biocore 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/biocore1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/biocore1.1 
>cp biocore.tcl biocorechat.tcl biocorelogin.tcl biocorepubsync.tcl pkgIndex.tcl locked.gif unlocked.gif biocoreHelper.tcl biocoreutil.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/biocore1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/biocore' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/catdcd' ã«å¥ãã¾ã
>for localname in `find ../compile -name catdcd -print` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	cp $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>done
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/catdcd' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cgtools' ã«å¥ãã¾ã
>Copying cgtools 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/cgtools1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/cgtools1.0 
>cp cggui.tcl cgtools.tcl cgnetworking.tcl pkgIndex.tcl protein.cgc water.cgc rbcg-2007.par rbcg-2007.top /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/cgtools1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cgtools' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/chirality' ã«å¥ãã¾ã
>Copying chirality 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/chirality1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/chirality1.1 
>cp chirality.tcl chirality_gui.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/chirality1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/chirality' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cionize' ã«å¥ãã¾ã
>for localname in `find ../compile -name cionize -print` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	cp $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>	tclplugname=`echo $pluginname | sed s/\\\/bin\\\//\\\/tcl\\\// `; \
>	tcldir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$tclplugname`; \
>	mkdir -p $tcldir; \
>	cp cionize.tcl pkgIndex.tcl $tcldir; \
>done
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cionize' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cispeptide' ã«å¥ãã¾ã
>Copying cispeptide 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/cispeptide1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/cispeptide1.1 
>cp cispeptide.tcl cispeptide_gui.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/cispeptide1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cispeptide' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cliptool' ã«å¥ãã¾ã
>Copying cliptool 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/cliptool1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/cliptool1.0 
>cp cliptool.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/cliptool1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/cliptool' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clonerep' ã«å¥ãã¾ã
>Copying clonerep 1.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/clonerep1.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/clonerep1.2 
>cp clonerep.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/clonerep1.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clonerep' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/colorscalebar' ã«å¥ãã¾ã
>Copying colorscalebar 1.3 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/colorscalebar1.3
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/colorscalebar1.3 
>cp colorscalebar.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/colorscalebar1.3 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/colorscalebar' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/contactmap' ã«å¥ãã¾ã
>Copying contactmap 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/contactmap1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/contactmap1.1 
>cp contactmap.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/contactmap1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/contactmap' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dataimport' ã«å¥ãã¾ã
>Copying dataimport 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/dataimport1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/dataimport1.0 
>cp dataimport.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/dataimport1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dataimport' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/demomaster' ã«å¥ãã¾ã
>Copying demomaster 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/demomaster1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/demomaster1.0 
>cp demomaster.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/demomaster1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/demomaster' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dipwatch' ã«å¥ãã¾ã
>Copying dipwatch 1.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/dipwatch1.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/dipwatch1.2 
>cp dipwatch.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/dipwatch1.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dipwatch' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dowser' ã«å¥ãã¾ã
>Copying dowser 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/dowser1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/dowser1.1 
>cp dowser.tcl dowser_gui.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/dowser1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/dowser' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/exectool' ã«å¥ãã¾ã
>Copying exectool 1.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/exectool1.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/exectool1.2 
>cp exectool.tcl jobmanager.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/exectool1.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/exectool' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/extendedpdb' ã«å¥ãã¾ã
>Copying extendedpdb 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/extendedpdb1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/extendedpdb1.0 
>cp extendedpdb.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/extendedpdb1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/extendedpdb' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/fftk' ã«å¥ãã¾ã
>Copying fftk 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/fftk1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/fftk1.0 
>cp pkgIndex.tcl fftk.tcl fftk_BondAngleOpt.tcl fftk_BuildPar.tcl fftk_ChargeOpt.tcl fftk_DihOpt.tcl fftk_GenBonded.tcl fftk_GenDihScan.tcl fftk_GenZMatrix.tcl fftk_GeomOpt.tcl fftk_guiInterface.tcl fftk_guiProcs.tcl fftk_SharedFcns.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/fftk1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/fftk' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/gofrgui' ã«å¥ãã¾ã
>Copying gofrgui 1.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/gofrgui1.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/gofrgui1.2 
>cp gofrgui.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/gofrgui1.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/gofrgui' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/heatmapper' ã«å¥ãã¾ã
>Copying heatmapper 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/heatmapper1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/heatmapper1.0 
>cp heatmapper.tcl pkgIndex.tcl  /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/heatmapper1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/heatmapper' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hbonds' ã«å¥ãã¾ã
>Copying hbonds 1.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/hbonds1.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/hbonds1.2 
>cp hbonds.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/hbonds1.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hbonds' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hesstrans' ã«å¥ãã¾ã
>for localname in `find ../compile -name hesstrans.so -print` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	cp $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>	cp pkgIndex.tcl $dir ; \
>done
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/hesstrans' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/idatm' ã«å¥ãã¾ã
>Copying idatm 0.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/idatm0.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/idatm0.1 
>cp idatm.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/idatm0.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/idatm' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ilstools' ã«å¥ãã¾ã
>Copying ilstools 1.4 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ilstools1.4
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ilstools1.4 
>cp -rf ilstools.tcl pkgIndex.tcl oxygen.xyz nitricoxide.xyz carbonmonoxide.xyz carbondioxide.xyz ethene.xyz methane.xyz nitrousoxide.xyz nitrogendioxide.xyz nitrogen.xyz acetylene.xyz hydrogen.xyz /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ilstools1.4 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ilstools' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/imdmenu' ã«å¥ãã¾ã
>Copying imdmenu 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/imdmenu1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/imdmenu1.0 
>cp -f imdmenu.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/imdmenu1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/imdmenu' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/inorganicbuilder' ã«å¥ãã¾ã
>Copying inorganicbuilder 0.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/inorganicbuilder0.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/inorganicbuilder0.1 
>cp inorganicbuilder.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/inorganicbuilder0.1 
>cp -r materials /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/inorganicbuilder0.1
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/inorganicbuilder' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/irspecgui' ã«å¥ãã¾ã
>Copying irspecgui 1.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/irspecgui1.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/irspecgui1.2 
>cp irspecgui.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/irspecgui1.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/irspecgui' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mdff' ã«å¥ãã¾ã
>Copying mdff 0.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/mdff0.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/mdff0.2 
>cp mdff.tcl mdff_check.tcl mdff_map.tcl mdff_sim.tcl mdff_correlation.tcl mdff_setup.tcl pkgIndex.tcl mdff_template.namd mdff_tmp.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/mdff0.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mdff' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/membrane' ã«å¥ãã¾ã
>Copying membrane 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/membrane1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/membrane1.1 
>cp membrane.tcl pkgIndex.tcl popc_box.pdb popc_box.psf popc36_box.pdb popc36_box.psf pope36_box.pdb pope36_box.psf pope_box.pdb pope_box.psf top_all27_prot_lipid.inp /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/membrane1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/membrane' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mergestructs' ã«å¥ãã¾ã
>Copying mergestructs 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/mergestructs1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/mergestructs1.1 
>cp mergestructs.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/mergestructs1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mergestructs' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molefacture' ã«å¥ãã¾ã
>Copying molefacture 1.3 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/molefacture1.3
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/molefacture1.3 
>cp molefacture.tcl molefacture_builder.tcl molefacture_edit.tcl molefacture_geometry.tcl molefacture_gui.tcl molefacture_internals.tcl molefacture_state.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/molefacture1.3 
>cp -r lib /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/molefacture1.3
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/molefacture' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/moltoptools' ã«å¥ãã¾ã
>Copying moltoptools 0.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/moltoptools0.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/moltoptools0.1 
>cp moltoptools.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/moltoptools0.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/moltoptools' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multimolanim' ã«å¥ãã¾ã
>Copying multimolanim 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multimolanim1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multimolanim1.0 
>cp multimolanim.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multimolanim1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multimolanim' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiplot' ã«å¥ãã¾ã
>Copying multiplot 1.6 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiplot1.6
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiplot1.6 
>cp multiplot.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiplot1.6 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiplot' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multitext' ã«å¥ãã¾ã
>Copying multitext 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multitext1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multitext1.0 
>cp multitext.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multitext1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multitext' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mutator' ã«å¥ãã¾ã
>for localname in `find ../compile -name libalchemify.so -print` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	cp $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>	cp mutator.tcl mutator_gui.tcl pkgIndex.tcl $dir ; \
>done
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/mutator' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdenergy' ã«å¥ãã¾ã
>Copying namdenergy 1.4 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdenergy1.4
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdenergy1.4 
>cp namdenergy.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdenergy1.4 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdenergy' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdgui' ã«å¥ãã¾ã
>Copying namdgui 1.3 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdgui1.3
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdgui1.3 
>cp namdgui.tcl namdgui_tclforces.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdgui1.3 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdgui' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdplot' ã«å¥ãã¾ã
>Copying namdplot 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdplot1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdplot1.1 
>cp namdplot.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdplot1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdplot' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdserver' ã«å¥ãã¾ã
>Copying namdserver 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdserver1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdserver1.1 
>cp namdserver.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/namdserver1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/namdserver' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nanotube' ã«å¥ãã¾ã
>Copying nanotube 1.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/nanotube1.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/nanotube1.2 
>cp gui.tcl graphene.tcl nanotube.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/nanotube1.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nanotube' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navfly' ã«å¥ãã¾ã
>Copying navfly 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/navfly1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/navfly1.0 
>cp navfly.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/navfly1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navfly' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navigate' ã«å¥ãã¾ã
>Copying navigate 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/navigate1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/navigate1.0 
>cp -rf navigate.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/navigate1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/navigate' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/networkview' ã«å¥ãã¾ã
>Copying networkview 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/networkview1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/networkview1.0 
>cp networkView.tcl networkViewGui.tcl communityNetwork.tcl suboptimalPaths.tcl networkSetup.tcl adjacencyMatrix.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/networkview1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/networkview' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nmwiz' ã«å¥ãã¾ã
>Copying nmwiz 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/nmwiz1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/nmwiz1.0 
>cp nmwiz.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/nmwiz1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/nmwiz' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/optimization' ã«å¥ãã¾ã
>Copying optimization 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/optimization1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/optimization1.1 
>cp optimization.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/optimization1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/optimization' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/palettetool' ã«å¥ãã¾ã
>Copying palettetool 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/palettetool1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/palettetool1.0 
>cp palettetool.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/palettetool1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/palettetool' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/paratool' ã«å¥ãã¾ã
>Copying paratool 1.5 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/paratool1.5
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/paratool1.5 
>cp paratool.tcl paratool_atomedit.tcl paratool_aux.tcl paratool_respcharges.tcl paratool_charmmcharges.tcl paratool_intcoor.tcl paratool_lists.tcl paratool_readwrite.tcl paratool_tmcomplex.tcl pkgIndex.tcl paratool_components.tcl paratool_topology.tcl paratool_parameters.tcl paratool_potscan.tcl paratool_refinement.tcl paratool_energies.tcl paratool_hessian.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/paratool1.5 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/paratool' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/parsefep' ã«å¥ãã¾ã
>Copying parsefep 1.5 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/parsefep1.5
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/parsefep1.5 
>cp parseFEP.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/parsefep1.5 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/parsefep' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pbctools' ã«å¥ãã¾ã
>Copying pbctools 2.6 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/pbctools2.6
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/pbctools2.6 
>cp pbcbox.tcl pbcgui.tcl pbcjoin.tcl pbcset.tcl pbctools.tcl pbcunwrap.tcl pbcwrap.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/pbctools2.6 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pbctools' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pdbtool' ã«å¥ãã¾ã
>Copying pdbtool 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/pdbtool1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/pdbtool1.0 
>cp pdbtool.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/pdbtool1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pdbtool' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/plumed' ã«å¥ãã¾ã
>Copying plumed 0.9 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/plumed0.9
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/plumed0.9 
>cp vmdplumed.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/plumed0.9 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/plumed' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pmepot' ã«å¥ãã¾ã
>for localname in `find ../compile -name libpmepot.so -print` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	cp $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>	cp src/pkgIndex.tcl $dir ; \
>	cp src/pmepot.tcl $dir ; \
>	cp src/pmepot_gui.tcl $dir ; \
>done
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/pmepot' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/propka' ã«å¥ãã¾ã
>Copying propka 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/propka1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/propka1.1 
>cp propka.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/propka1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/propka' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psfgen' ã«å¥ãã¾ã
>for localname in `find ../compile -name libpsfgen.so -print` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	cp $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>	cp doc/ug.pdf $dir ; \
>	cp src/pkgIndex.tcl $dir ; \
>done
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psfgen' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/qmtool' ã«å¥ãã¾ã
>Copying qmtool 1.3 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/qmtool1.3
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/qmtool1.3 
>cp qmtool.tcl qmtool_analysis.tcl qmtool_atomedit.tcl qmtool_aux.tcl qmtool_charges.tcl qmtool_intcoor.tcl qmtool_readwrite.tcl qmtool_setup.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/qmtool1.3 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/qmtool' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ramaplot' ã«å¥ãã¾ã
>Copying ramaplot 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ramaplot1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ramaplot1.1 
>cp ramaplot.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ramaplot1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ramaplot' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmpar' ã«å¥ãã¾ã
>Copying readcharmmpar 1.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/readcharmmpar1.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/readcharmmpar1.2 
>cp readcharmmpar.tcl par_all27_prot_lipid_na.inp pkgIndex.tcl par_amber2charmm.inp par_all36_lipid.prm /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/readcharmmpar1.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmpar' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmtop' ã«å¥ãã¾ã
>Copying readcharmmtop 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/readcharmmtop1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/readcharmmtop1.1 
>cp readcharmmtop.tcl pkgIndex.tcl top_all27_prot_lipid_na.inp top_all27_hybrid.inp top_amber2charmm.inp top_all36_lipid.rtf /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/readcharmmtop1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/readcharmmtop' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/remote' ã«å¥ãã¾ã
>Copying remote 0.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/remote0.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/remote0.1 
>cp remote.tcl pkgIndex.tcl  /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/remote0.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/remote' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/resptool' ã«å¥ãã¾ã
>Copying resptool 1.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/resptool1.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/resptool1.2 
>cp resptool.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/resptool1.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/resptool' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rnaview' ã«å¥ãã¾ã
>echo "Copying rnaview 1.1 files to"
>Copying rnaview 1.1 files to
>for localname in `find ../compile -name rnaview -o -name rnaview.exe` ; do \
>  	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>                dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>                mkdir -p $dir; \
>                echo "    $dir"; \
>                cp $localname $dir; \
>        cp rnaview.tcl pkgIndex.tcl $dir; \
>cp -r BASEPARS $dir; \
>        done
>    /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/rnaview1.1
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rnaview' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsd' ã«å¥ãã¾ã
>Copying rmsd 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/rmsd1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/rmsd1.0 
>cp rmsd.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/rmsd1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsd' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdtt' ã«å¥ãã¾ã
>Copying rmsdtt 3.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/rmsdtt3.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/rmsdtt3.0 
>cp rmsdtt.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/rmsdtt3.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdtt' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdvt' ã«å¥ãã¾ã
>Copying rmsdvt 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/rmsdvt1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/rmsdvt1.0 
>cp modal.tcl  rmsdvt-gui.tcl  rmsdvt.tcl pkgIndex.tcl  /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/rmsdvt1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/rmsdvt' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ruler' ã«å¥ãã¾ã
>Copying ruler 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ruler1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ruler1.0 
>cp ruler.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ruler1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ruler' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runante' ã«å¥ãã¾ã
>Copying runante 0.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/runante0.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/runante0.2 
>cp runante.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/runante0.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runante' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runsqm' ã«å¥ãã¾ã
>Copying runsqm 0.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/runsqm0.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/runsqm0.2 
>cp runsqm.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/runsqm0.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/runsqm' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/saltbr' ã«å¥ãã¾ã
>Copying saltbr 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/saltbr1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/saltbr1.1 
>cp saltbr.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/saltbr1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/saltbr' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/signalproc' ã«å¥ãã¾ã
>for localname in `find ../compile -name specden.so -print` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	cp $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>	cp pkgIndex.tcl data_io_lib.tcl fftpack.tcl signalproc.tcl $dir ; \
>done
>for localname in `find ../compile -name fftcmds.so -print` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	cp $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>done
>for localname in `find ../compile -name sgsmooth.so -print` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	cp $localname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname; \
>done
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/signalproc' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/solvate' ã«å¥ãã¾ã
>Copying solvate 1.5 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/solvate1.5
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/solvate1.5 
>cp wat.top wat.pdb wat.psf solvate.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/solvate1.5 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/solvate' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ssrestraints' ã«å¥ãã¾ã
>Copying ssrestraints 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ssrestraints1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ssrestraints1.1 
>cp ssrestraints.tcl ssrestraints_stride.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/ssrestraints1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/ssrestraints' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stingtool' ã«å¥ãã¾ã
>Copying stingtool 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/stingtool1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/stingtool1.0 
>cp stingtool.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/stingtool1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stingtool' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/symmetrytool' ã«å¥ãã¾ã
>Copying symmetrytool 1.3 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/symmetrytool1.3
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/symmetrytool1.3 
>cp symmetry.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/symmetrytool1.3 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/symmetrytool' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/timeline' ã«å¥ãã¾ã
>Copying timeline 2.3 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/timeline2.3
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/timeline2.3 
>cp timeline.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/timeline2.3 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/timeline' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/topotools' ã«å¥ãã¾ã
>Copying topotools 1.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/topotools1.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/topotools1.2 
>cp pkgIndex.tcl README topotools.tcl topoatoms.tcl topobonds.tcl topoangles.tcl topodihedrals.tcl topoimpropers.tcl topolammps.tcl topocgcmm.tcl topoutils.tcl topohelpers.tcl topogromacs.tcl topovarxyz.tcl par_CG.prm top_CG.prm /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/topotools1.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/topotools' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/trunctraj' ã«å¥ãã¾ã
>Copying trunctraj 1.5 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/trunctraj1.5
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/trunctraj1.5 
>cp trunctraj.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/trunctraj1.5 
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/trunctraj1.5/toppar
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/trunctraj1.5/toppar/non_charmm
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/trunctraj1.5/toppar/stream
>cp toppar/*.inp toppar/*.prm toppar/*.rtf    /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/trunctraj1.5/toppar
>cp toppar/non_charmm/*.inp                   /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/trunctraj1.5/toppar/non_charmm/
>cp toppar/stream/*.str                       /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/trunctraj1.5/toppar/stream/
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/trunctraj' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/utilities' ã«å¥ãã¾ã
>Copying utilities 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/utilities1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/utilities1.0 
>cp utilities.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/utilities1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/utilities' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vdna' ã«å¥ãã¾ã
>Copying vdna 2.2 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vdna2.2
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vdna2.2 
>cp vdna.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vdna2.2 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vdna' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewchangerender' ã«å¥ãã¾ã
>Copying viewchangerender 1.6 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/viewchangerender1.6
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/viewchangerender1.6 
>cp vcr.tcl vcr_gui.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/viewchangerender1.6 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewchangerender' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewmaster' ã«å¥ãã¾ã
>Copying viewmaster 2.5 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/viewmaster2.5
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/viewmaster2.5 
>cp viewmaster.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/viewmaster2.5 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/viewmaster' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volmapgui' ã«å¥ãã¾ã
>Copying volmapgui 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/volmapgui1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/volmapgui1.1 
>cp -rf volmapgui.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/volmapgui1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volmapgui' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volutil' ã«å¥ãã¾ã
>echo "Copying volutil 1.3 files to"
>Copying volutil 1.3 files to
>for localname in `find ../compile -name volutil -o -name volutil.exe` ; do \
>                pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>                dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>                mkdir -p $dir; \
>	echo "    $dir"; \
>                cp $localname $dir; \
>        cp volutil.tcl pkgIndex.tcl $dir; \
>        done
>    /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/volutil1.3
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/volutil' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmddebug' ã«å¥ãã¾ã
>Copying vmddebug 1.0 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vmddebug1.0
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vmddebug1.0 
>cp vmddebug.tcl debugatomsel.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vmddebug1.0 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmddebug' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdmovie' ã«å¥ãã¾ã
>Copying vmdmovie 1.9 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vmdmovie1.9
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vmdmovie1.9 
>cp vmdmovie.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vmdmovie1.9 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdmovie' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdtkcon' ã«å¥ãã¾ã
>Copying vmdtkcon 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vmdtkcon1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vmdtkcon1.1 
>cp -rf vmdtkcon.tcl tkcon-modified.tcl pkgIndex.tcl tkcon-2.3 README /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/vmdtkcon1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/vmdtkcon' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/zoomseq' ã«å¥ãã¾ã
>Copying zoomseq 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/zoomseq1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/zoomseq1.1 
>cp zoomseq.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/zoomseq1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/zoomseq' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/blast' ã«å¥ãã¾ã
>echo "Copying blast 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/blast1.1"
>Copying blast 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/blast1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/blast1.1 
>cp blast.tcl blast_resultviewer.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/blast1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/blast' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clustalw' ã«å¥ãã¾ã
>echo "Copying clustalw 1.1 files to"
>Copying clustalw 1.1 files to
>for localname in `find ../compile -name clustalw -o -name clustalw.exe` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	echo "    $dir"; \
>	cp $localname $dir; \
>        cp mafft.tcl clustalw.tcl clustalw_help pkgIndex.tcl $dir; \
>done
>    /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/clustalw1.1
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/clustalw' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/libbiokit' ã«å¥ãã¾ã
>echo "Copying libbiokit 1.1 files."
>Copying libbiokit 1.1 files.
>for localname in `find ../compile -name tcl_libbiokit.so -o -name percid -o -name percid.exe -o -name q -o -name q.exe -o -name qpair -o -name qpair.exe -o -name rmsd -o -name rmsd.exe -o -name seqqr -o -name seqqr.exe -o -name structqr -o -name structqr.exe` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	echo "  $localname -> $dir"; \
>	cp $localname $dir; \
>        cp libbiokit.tcl libbiokit_entropy.tcl libbiokit_profcombine.tcl metric.tcl pkgIndex.tcl $dir; \
>done
>  ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.so -> /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/libbiokit1.1
>  ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/q -> /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/libbiokit1.1
>  ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/seqqr -> /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/libbiokit1.1
>  ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/structqr -> /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/libbiokit1.1
>  ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/qpair -> /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/libbiokit1.1
>  ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/rmsd -> /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/libbiokit1.1
>  ../compile/lib_FREEBSDAMD64/tcl/libbiokit1.1/percid -> /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/libbiokit1.1
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/libbiokit' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseq' ã«å¥ãã¾ã
>echo "Copying multiseq 2.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiseq2.1"
>Copying multiseq 2.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiseq2.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiseq2.1 
>cp colormap_vmd.tcl export_options.tcl get_input.tcl import_options.tcl multiseq.tcl phylotree_options.tcl pkgIndex.tcl plot.tcl select_contactshell.tcl select_nrset.tcl select_residues.tcl stamp_options.tcl find.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiseq2.1 
>cp versions* /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiseq2.1
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseq' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseqdialog' ã«å¥ãã¾ã
>echo "Copying multiseqdialog 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiseqdialog1.1"
>Copying multiseqdialog 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiseqdialog1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiseqdialog1.1 
>cp download_updates.tcl multiseqdialog.tcl pkgIndex.tcl scrolledframe.tcl wait_dialog.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/multiseqdialog1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/multiseqdialog' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/phylotree' ã«å¥ãã¾ã
>echo "Copying phylotree 1.2 files to"
>Copying phylotree 1.2 files to
>for localname in `find ../compile -name upgmaclu -o -name upgmaclu.exe` ;do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	echo "    $dir"; \
>	cp $localname $dir; \
>   cp phylotree.tcl phylotree_analysis.tcl phylotree_data.tcl phylotree_export.tcl phylotree_je.tcl phylotree_matrixviewer.tcl phylotree_newick.tcl phylotree_nexus.tcl phylotree_nodeprops.tcl phylotree_widget.tcl pkgIndex.tcl cluster.tcl $dir; \
>done
>    /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/phylotree1.2
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/phylotree' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psipred' ã«å¥ãã¾ã
>echo "Copying psipred 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/psipred1.1"
>Copying psipred 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/psipred1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/psipred1.1 
>cp psipred.tcl pkgIndex.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/psipred1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/psipred' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqdata' ã«å¥ãã¾ã
>echo "Copying seqdata 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/seqdata1.1"
>Copying seqdata 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/seqdata1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/seqdata1.1 
>cp pkgIndex.tcl seqdata.tcl seqdata_aln.tcl seqdata_astral.tcl seqdata_enzyme.tcl seqdata_fasta.tcl seqdata_genbank.tcl seqdata_nex.tcl seqdata_notes.tcl seqdata_pdb.tcl seqdata_pir.tcl seqdata_phy.tcl seqdata_scop.tcl seqdata_swissprot.tcl seqdata_taxonomy.tcl seqdata_temperature.tcl seqdata_vmd.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/seqdata1.1 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqdata' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqedit' ã«å¥ãã¾ã
>echo "Copying seqedit 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/seqedit1.1"
>Copying seqedit 1.1 files to /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/seqedit1.1
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/seqedit1.1 
>cp clustalw_preferences.tcl colormap_default.tcl consensus_builder.tcl customize_groups.tcl get_groupname.tcl metric_conservation.tcl metric_element.tcl metric_entropy.tcl metric_import.tcl metric_insertions.tcl metric_mutualinfo.tcl metric_percentid.tcl metric_selection.tcl metric_signatures.tcl metric_similarity.tcl metric_type.tcl pkgIndex.tcl removegaps_options.tcl seqedit.tcl seqedit_preview.tcl seqedit_widget.tcl seqedit_widget_edit.tcl seqedit_widget_select.tcl seqedit_widget_statusbar.tcl taxonomy_options.tcl /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/seqedit1.1 
>mkdir -p /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/seqedit1.1/blosum 
>cd blosum; cp blosum* /usr/ports/science/vmd/work/vmd-1.9.1/plugins/noarch/tcl/seqedit1.1/blosum 
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/seqedit' ããåºã¾ã
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stamp' ã«å¥ãã¾ã
>echo "Copying stamp 1.2 files to"
>Copying stamp 1.2 files to
>for localname in `find ../compile -name stamp -o -name stamp.exe` ; do \
>	pluginname=`echo $localname | sed s/..\\\/compile\\\/lib_// `; \
>	dir=`dirname /usr/ports/science/vmd/work/vmd-1.9.1/plugins/$pluginname`; \
>	mkdir -p $dir; \
>	echo "    $dir"; \
>	cp $localname $dir; \
>        cp stamp.tcl pkgIndex.tcl dssp.directories pdb.directories stamp.defaults $dir; \
>done
>    /usr/ports/science/vmd/work/vmd-1.9.1/plugins/FREEBSDAMD64/tcl/stamp1.2
>gmake[2]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins/stamp' ããåºã¾ã
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/plugins' ããåºã¾ã
>/usr/bin/env XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work NO_PIE=yes SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" PREFIX=/usr/local  LOCALBASE=/usr/local  LIBDIR="/usr/lib"  CC="gcc48" CFLAGS="-O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing"  CPP="cpp48" CPPFLAGS=""  LDFLAGS=" -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48" LIBS=""  CXX="g++48" CXXFLAGS="-O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48"  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -o root -g wheel -m 555"  BSD_INSTALL_LIB="install  -s -o root -g wheel -m 444"  BSD_INSTALL_SCRIPT="install  -o root -g wheel -m 555"  BSD_INSTALL_DATA="install  -o root -g wheel -m 0644"  BSD_INSTALL_MAN="install  -o root -g wheel -m 444" TCL_INCLUDE_DIR=/usr/local/include/tcl8.5  TK_INCLUDE_DIR=/usr/local/include/tk8.5 gmake  freebsd.amd64.opengl -C /usr/ports/science/vmd/work/vmd-1.9.1
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1' ã«å¥ãã¾ã
>./configure FREEBSDAMD64 OPENGL FLTK TK IMD TCL PTHREADS LIBTACHYON NETCDF
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1' ããåºã¾ã
>/usr/bin/env XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work NO_PIE=yes SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" PREFIX=/usr/local  LOCALBASE=/usr/local  LIBDIR="/usr/lib"  CC="gcc48" CFLAGS="-O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing"  CPP="cpp48" CPPFLAGS=""  LDFLAGS=" -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48" LIBS=""  CXX="g++48" CXXFLAGS="-O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48"  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -o root -g wheel -m 555"  BSD_INSTALL_LIB="install  -s -o root -g wheel -m 444"  BSD_INSTALL_SCRIPT="install  -o root -g wheel -m 555"  BSD_INSTALL_DATA="install  -o root -g wheel -m 0644"  BSD_INSTALL_MAN="install  -o root -g wheel -m 444" gmake all -C /usr/ports/science/vmd/work/vmd-1.9.1/src
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/src' ã«å¥ãã¾ã
>echo "Compiling " OpenGLDisplayDevice.C " --> " OpenGLDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OpenGLDisplayDevice.C -o ../FREEBSDAMD64/OpenGLDisplayDevice.o
>Compiling  OpenGLDisplayDevice.C  -->  OpenGLDisplayDevice.o  ...
>echo "Compiling " OpenGLExtensions.C " --> " OpenGLExtensions.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OpenGLExtensions.C -o ../FREEBSDAMD64/OpenGLExtensions.o
>Compiling  OpenGLExtensions.C  -->  OpenGLExtensions.o  ...
>echo "Compiling " OpenGLRenderer.C " --> " OpenGLRenderer.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OpenGLRenderer.C -o ../FREEBSDAMD64/OpenGLRenderer.o
>Compiling  OpenGLRenderer.C  -->  OpenGLRenderer.o  ...
>echo "Compiling " OpenGLShader.C " --> " OpenGLShader.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OpenGLShader.C -o ../FREEBSDAMD64/OpenGLShader.o
>Compiling  OpenGLShader.C  -->  OpenGLShader.o  ...
>OpenGLShader.C: In member function 'int OpenGLShader::ReadShaderSource(const char*, GLubyte**, GLubyte**)':
>OpenGLShader.C:196:22: warning: variable 'count' set but not used [-Wunused-but-set-variable]
>   long vsize, fsize, count;
>                      ^
>echo "Compiling " OpenGLCache.C " --> " OpenGLCache.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OpenGLCache.C -o ../FREEBSDAMD64/OpenGLCache.o
>Compiling  OpenGLCache.C  -->  OpenGLCache.o  ...
>echo "Compiling " IMDMgr.C " --> " IMDMgr.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c IMDMgr.C -o ../FREEBSDAMD64/IMDMgr.o
>Compiling  IMDMgr.C  -->  IMDMgr.o  ...
>echo "Compiling " IMDSim.C " --> " IMDSim.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c IMDSim.C -o ../FREEBSDAMD64/IMDSim.o
>Compiling  IMDSim.C  -->  IMDSim.o  ...
>echo "Compiling " IMDSimThread.C " --> " IMDSimThread.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c IMDSimThread.C -o ../FREEBSDAMD64/IMDSimThread.o
>Compiling  IMDSimThread.C  -->  IMDSimThread.o  ...
>echo "Compiling " CmdIMD.C " --> " CmdIMD.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdIMD.C -o ../FREEBSDAMD64/CmdIMD.o
>Compiling  CmdIMD.C  -->  CmdIMD.o  ...
>echo "Compiling " imd.C " --> " imd.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c imd.C -o ../FREEBSDAMD64/imd.o
>Compiling  imd.C  -->  imd.o  ...
>echo "Compiling " LibTachyonDisplayDevice.C " --> " LibTachyonDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c LibTachyonDisplayDevice.C -o ../FREEBSDAMD64/LibTachyonDisplayDevice.o
>Compiling  LibTachyonDisplayDevice.C  -->  LibTachyonDisplayDevice.o  ...
>echo "Compiling " Animation.C " --> " Animation.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Animation.C -o ../FREEBSDAMD64/Animation.o
>Compiling  Animation.C  -->  Animation.o  ...
>echo "Compiling " ArtDisplayDevice.C " --> " ArtDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ArtDisplayDevice.C -o ../FREEBSDAMD64/ArtDisplayDevice.o
>Compiling  ArtDisplayDevice.C  -->  ArtDisplayDevice.o  ...
>echo "Compiling " AtomColor.C " --> " AtomColor.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c AtomColor.C -o ../FREEBSDAMD64/AtomColor.o
>Compiling  AtomColor.C  -->  AtomColor.o  ...
>echo "Compiling " AtomParser.C " --> " AtomParser.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c AtomParser.C -o ../FREEBSDAMD64/AtomParser.o
>Compiling  AtomParser.C  -->  AtomParser.o  ...
>/usr/ccs/bin/yaccpar:5:0: warning: ignoring #pragma ident  [-Wunknown-pragmas]
>echo "Compiling " AtomLexer.C " --> " AtomLexer.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c AtomLexer.C -o ../FREEBSDAMD64/AtomLexer.o
>Compiling  AtomLexer.C  -->  AtomLexer.o  ...
>lex.yy.c:1511:13: warning: 'void yyunput(int, char*)' defined but not used [-Wunused-function]
>echo "Compiling " AtomRep.C " --> " AtomRep.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c AtomRep.C -o ../FREEBSDAMD64/AtomRep.o
>Compiling  AtomRep.C  -->  AtomRep.o  ...
>echo "Compiling " AtomSel.C " --> " AtomSel.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c AtomSel.C -o ../FREEBSDAMD64/AtomSel.o
>Compiling  AtomSel.C  -->  AtomSel.o  ...
>echo "Compiling " Axes.C " --> " Axes.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Axes.C -o ../FREEBSDAMD64/Axes.o
>Compiling  Axes.C  -->  Axes.o  ...
>echo "Compiling " BaseMolecule.C " --> " BaseMolecule.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c BaseMolecule.C -o ../FREEBSDAMD64/BaseMolecule.o
>Compiling  BaseMolecule.C  -->  BaseMolecule.o  ...
>BaseMolecule.C: In member function 'int BaseMolecule::find_small_rings(int)':
>BaseMolecule.C:1748:7: warning: variable 'n_back_edges' set but not used [-Wunused-but-set-variable]
>   int n_back_edges, n_rings;
>       ^
>echo "Compiling " Benchmark.C " --> " Benchmark.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Benchmark.C -o ../FREEBSDAMD64/Benchmark.o
>Compiling  Benchmark.C  -->  Benchmark.o  ...
>echo "Compiling " BondSearch.C " --> " BondSearch.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c BondSearch.C -o ../FREEBSDAMD64/BondSearch.o
>Compiling  BondSearch.C  -->  BondSearch.o  ...
>echo "Compiling " CmdAnimate.C " --> " CmdAnimate.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdAnimate.C -o ../FREEBSDAMD64/CmdAnimate.o
>Compiling  CmdAnimate.C  -->  CmdAnimate.o  ...
>echo "Compiling " CmdColor.C " --> " CmdColor.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdColor.C -o ../FREEBSDAMD64/CmdColor.o
>Compiling  CmdColor.C  -->  CmdColor.o  ...
>echo "Compiling " CmdDisplay.C " --> " CmdDisplay.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdDisplay.C -o ../FREEBSDAMD64/CmdDisplay.o
>Compiling  CmdDisplay.C  -->  CmdDisplay.o  ...
>echo "Compiling " CmdLabel.C " --> " CmdLabel.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdLabel.C -o ../FREEBSDAMD64/CmdLabel.o
>Compiling  CmdLabel.C  -->  CmdLabel.o  ...
>echo "Compiling " CmdMaterial.C " --> " CmdMaterial.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdMaterial.C -o ../FREEBSDAMD64/CmdMaterial.o
>Compiling  CmdMaterial.C  -->  CmdMaterial.o  ...
>echo "Compiling " CmdMenu.C " --> " CmdMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdMenu.C -o ../FREEBSDAMD64/CmdMenu.o
>Compiling  CmdMenu.C  -->  CmdMenu.o  ...
>echo "Compiling " CmdMol.C " --> " CmdMol.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdMol.C -o ../FREEBSDAMD64/CmdMol.o
>Compiling  CmdMol.C  -->  CmdMol.o  ...
>echo "Compiling " CmdRender.C " --> " CmdRender.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdRender.C -o ../FREEBSDAMD64/CmdRender.o
>Compiling  CmdRender.C  -->  CmdRender.o  ...
>echo "Compiling " CmdTrans.C " --> " CmdTrans.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CmdTrans.C -o ../FREEBSDAMD64/CmdTrans.o
>Compiling  CmdTrans.C  -->  CmdTrans.o  ...
>echo "Compiling " CommandQueue.C " --> " CommandQueue.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CommandQueue.C -o ../FREEBSDAMD64/CommandQueue.o
>Compiling  CommandQueue.C  -->  CommandQueue.o  ...
>echo "Compiling " CoorPluginData.C " --> " CoorPluginData.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CoorPluginData.C -o ../FREEBSDAMD64/CoorPluginData.o
>Compiling  CoorPluginData.C  -->  CoorPluginData.o  ...
>echo "Compiling " CUDAAccel.C " --> " CUDAAccel.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c CUDAAccel.C -o ../FREEBSDAMD64/CUDAAccel.o
>Compiling  CUDAAccel.C  -->  CUDAAccel.o  ...
>CUDAAccel.C: In constructor 'CUDAAccel::CUDAAccel()':
>CUDAAccel.C:33:7: warning: unused variable 'usabledevices' [-Wunused-variable]
>   int usabledevices = 0;
>       ^
>CUDAAccel.C:42:16: warning: variable 'gpumask' set but not used [-Wunused-but-set-variable]
>   unsigned int gpumask = 0xffffffff;
>                ^
>echo "Compiling " DisplayDevice.C " --> " DisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DisplayDevice.C -o ../FREEBSDAMD64/DisplayDevice.o
>Compiling  DisplayDevice.C  -->  DisplayDevice.o  ...
>echo "Compiling " Displayable.C " --> " Displayable.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Displayable.C -o ../FREEBSDAMD64/Displayable.o
>Compiling  Displayable.C  -->  Displayable.o  ...
>echo "Compiling " DisplayRocker.C " --> " DisplayRocker.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DisplayRocker.C -o ../FREEBSDAMD64/DisplayRocker.o
>Compiling  DisplayRocker.C  -->  DisplayRocker.o  ...
>echo "Compiling " DispCmds.C " --> " DispCmds.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DispCmds.C -o ../FREEBSDAMD64/DispCmds.o
>Compiling  DispCmds.C  -->  DispCmds.o  ...
>echo "Compiling " DrawMolecule.C " --> " DrawMolecule.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolecule.C -o ../FREEBSDAMD64/DrawMolecule.o
>Compiling  DrawMolecule.C  -->  DrawMolecule.o  ...
>echo "Compiling " DrawMolItem.C " --> " DrawMolItem.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItem.C -o ../FREEBSDAMD64/DrawMolItem.o
>Compiling  DrawMolItem.C  -->  DrawMolItem.o  ...
>DrawMolItem.C: In member function 'void DrawMolItem::draw_spline_curve(int, float*, int*, int, float, int)':
>DrawMolItem.C:1787:16: warning: variable 'modulatedata' set but not used [-Wunused-but-set-variable]
>   const float *modulatedata = NULL; // data field to use for width modulation
>                ^
>DrawMolItem.C:1788:10: warning: variable 'modulate' set but not used [-Wunused-but-set-variable]
>   float *modulate = NULL;           // per-control point width values
>          ^
>echo "Compiling " DrawMolItem2.C " --> " DrawMolItem2.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItem2.C -o ../FREEBSDAMD64/DrawMolItem2.o
>Compiling  DrawMolItem2.C  -->  DrawMolItem2.o  ...
>echo "Compiling " DrawMolItemRibbons.C " --> " DrawMolItemRibbons.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemRibbons.C -o ../FREEBSDAMD64/DrawMolItemRibbons.o
>Compiling  DrawMolItemRibbons.C  -->  DrawMolItemRibbons.o  ...
>echo "Compiling " DrawMolItemMSMS.C " --> " DrawMolItemMSMS.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemMSMS.C -o ../FREEBSDAMD64/DrawMolItemMSMS.o
>Compiling  DrawMolItemMSMS.C  -->  DrawMolItemMSMS.o  ...
>echo "Compiling " DrawMolItemRings.C " --> " DrawMolItemRings.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemRings.C -o ../FREEBSDAMD64/DrawMolItemRings.o
>Compiling  DrawMolItemRings.C  -->  DrawMolItemRings.o  ...
>echo "Compiling " DrawMolItemOrbital.C " --> " DrawMolItemOrbital.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemOrbital.C -o ../FREEBSDAMD64/DrawMolItemOrbital.o
>Compiling  DrawMolItemOrbital.C  -->  DrawMolItemOrbital.o  ...
>DrawMolItemOrbital.C: In member function 'void DrawMolItem::draw_orbital(int, int, int, int, int, float, int, int, float, int, int)':
>DrawMolItemOrbital.C:64:10: warning: variable 'motime' set but not used [-Wunused-but-set-variable]
>   double motime=0, voltime=0, gradtime=0;
>          ^
>DrawMolItemOrbital.C:64:20: warning: variable 'voltime' set but not used [-Wunused-but-set-variable]
>   double motime=0, voltime=0, gradtime=0;
>                    ^
>DrawMolItemOrbital.C:64:31: warning: variable 'gradtime' set but not used [-Wunused-but-set-variable]
>   double motime=0, voltime=0, gradtime=0;
>                               ^
>echo "Compiling " DrawMolItemQuickSurf.C " --> " DrawMolItemQuickSurf.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemQuickSurf.C -o ../FREEBSDAMD64/DrawMolItemQuickSurf.o
>Compiling  DrawMolItemQuickSurf.C  -->  DrawMolItemQuickSurf.o  ...
>echo "Compiling " DrawMolItemSurface.C " --> " DrawMolItemSurface.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemSurface.C -o ../FREEBSDAMD64/DrawMolItemSurface.o
>Compiling  DrawMolItemSurface.C  -->  DrawMolItemSurface.o  ...
>echo "Compiling " DrawMolItemVolume.C " --> " DrawMolItemVolume.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawMolItemVolume.C -o ../FREEBSDAMD64/DrawMolItemVolume.o
>Compiling  DrawMolItemVolume.C  -->  DrawMolItemVolume.o  ...
>echo "Compiling " DrawForce.C " --> " DrawForce.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawForce.C -o ../FREEBSDAMD64/DrawForce.o
>Compiling  DrawForce.C  -->  DrawForce.o  ...
>echo "Compiling " DrawRingsUtils.C " --> " DrawRingsUtils.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DrawRingsUtils.C -o ../FREEBSDAMD64/DrawRingsUtils.o
>Compiling  DrawRingsUtils.C  -->  DrawRingsUtils.o  ...
>DrawRingsUtils.C: In function 'void hotcold_gradient_lerp(float, float*)':
>DrawRingsUtils.C:48:9: warning: unused variable 'yellow2' [-Wunused-variable]
>   float yellow2[3] = {0.8f, 1.0f, 0.0f};
>         ^
>echo "Compiling " FileRenderList.C " --> " FileRenderList.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c FileRenderList.C -o ../FREEBSDAMD64/FileRenderList.o
>Compiling  FileRenderList.C  -->  FileRenderList.o  ...
>echo "Compiling " FileRenderer.C " --> " FileRenderer.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c FileRenderer.C -o ../FREEBSDAMD64/FileRenderer.o
>Compiling  FileRenderer.C  -->  FileRenderer.o  ...
>echo "Compiling " FPS.C " --> " FPS.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c FPS.C -o ../FREEBSDAMD64/FPS.o
>Compiling  FPS.C  -->  FPS.o  ...
>echo "Compiling " GelatoDisplayDevice.C " --> " GelatoDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GelatoDisplayDevice.C -o ../FREEBSDAMD64/GelatoDisplayDevice.o
>Compiling  GelatoDisplayDevice.C  -->  GelatoDisplayDevice.o  ...
>GelatoDisplayDevice.C: In function 'int intersectlines2D(float*, float*, float*, float*, float*)':
>GelatoDisplayDevice.C:43:13: warning: variable 'ub' set but not used [-Wunused-but-set-variable]
>   float ua, ub, den, nomua, nomub;
>             ^
>echo "Compiling " GeometryAngle.C " --> " GeometryAngle.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryAngle.C -o ../FREEBSDAMD64/GeometryAngle.o
>Compiling  GeometryAngle.C  -->  GeometryAngle.o  ...
>echo "Compiling " GeometryAtom.C " --> " GeometryAtom.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryAtom.C -o ../FREEBSDAMD64/GeometryAtom.o
>Compiling  GeometryAtom.C  -->  GeometryAtom.o  ...
>echo "Compiling " GeometryBond.C " --> " GeometryBond.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryBond.C -o ../FREEBSDAMD64/GeometryBond.o
>Compiling  GeometryBond.C  -->  GeometryBond.o  ...
>echo "Compiling " GeometryDihedral.C " --> " GeometryDihedral.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryDihedral.C -o ../FREEBSDAMD64/GeometryDihedral.o
>Compiling  GeometryDihedral.C  -->  GeometryDihedral.o  ...
>echo "Compiling " GeometryList.C " --> " GeometryList.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryList.C -o ../FREEBSDAMD64/GeometryList.o
>Compiling  GeometryList.C  -->  GeometryList.o  ...
>echo "Compiling " GeometryMol.C " --> " GeometryMol.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryMol.C -o ../FREEBSDAMD64/GeometryMol.o
>Compiling  GeometryMol.C  -->  GeometryMol.o  ...
>echo "Compiling " GeometrySpring.C " --> " GeometrySpring.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometrySpring.C -o ../FREEBSDAMD64/GeometrySpring.o
>Compiling  GeometrySpring.C  -->  GeometrySpring.o  ...
>echo "Compiling " Hershey.C " --> " Hershey.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Hershey.C -o ../FREEBSDAMD64/Hershey.o
>Compiling  Hershey.C  -->  Hershey.o  ...
>echo "Compiling " Inform.C " --> " Inform.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Inform.C -o ../FREEBSDAMD64/Inform.o
>Compiling  Inform.C  -->  Inform.o  ...
>echo "Compiling " ImageIO.C " --> " ImageIO.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ImageIO.C -o ../FREEBSDAMD64/ImageIO.o
>Compiling  ImageIO.C  -->  ImageIO.o  ...
>echo "Compiling " Isosurface.C " --> " Isosurface.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Isosurface.C -o ../FREEBSDAMD64/Isosurface.o
>Compiling  Isosurface.C  -->  Isosurface.o  ...
>In file included from Isosurface.C:16:0:
>Isosurface.h:400:21: warning: 'numVertsTable' defined but not used [-Wunused-variable]
> static unsigned int numVertsTable[256] = {
>                     ^
>echo "Compiling " JRegex.C " --> " JRegex.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c JRegex.C -o ../FREEBSDAMD64/JRegex.o
>Compiling  JRegex.C  -->  JRegex.o  ...
>echo "Compiling " JString.C " --> " JString.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c JString.C -o ../FREEBSDAMD64/JString.o
>Compiling  JString.C  -->  JString.o  ...
>echo "Compiling " macosxvmdstart.C " --> " macosxvmdstart.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c macosxvmdstart.C -o ../FREEBSDAMD64/macosxvmdstart.o
>Compiling  macosxvmdstart.C  -->  macosxvmdstart.o  ...
>echo "Compiling " MaterialList.C " --> " MaterialList.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MaterialList.C -o ../FREEBSDAMD64/MaterialList.o
>Compiling  MaterialList.C  -->  MaterialList.o  ...
>echo "Compiling " Matrix4.C " --> " Matrix4.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Matrix4.C -o ../FREEBSDAMD64/Matrix4.o
>Compiling  Matrix4.C  -->  Matrix4.o  ...
>echo "Compiling " MayaDisplayDevice.C " --> " MayaDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MayaDisplayDevice.C -o ../FREEBSDAMD64/MayaDisplayDevice.o
>Compiling  MayaDisplayDevice.C  -->  MayaDisplayDevice.o  ...
>echo "Compiling " Measure.C " --> " Measure.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Measure.C -o ../FREEBSDAMD64/Measure.o
>Compiling  Measure.C  -->  Measure.o  ...
>echo "Compiling " MeasureCluster.C " --> " MeasureCluster.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasureCluster.C -o ../FREEBSDAMD64/MeasureCluster.o
>Compiling  MeasureCluster.C  -->  MeasureCluster.o  ...
>MeasureCluster.C: In function 'float MyMatrixFitRMS(int, float*, float*, const float*, double)':
>MeasureCluster.C:213:32: warning: variable 'ix' set but not used [-Wunused-but-set-variable]
>   int a, b, c, maxiter, iters, ix, iy, iz;
>                                ^
>echo "Compiling " MeasurePBC.C " --> " MeasurePBC.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasurePBC.C -o ../FREEBSDAMD64/MeasurePBC.o
>Compiling  MeasurePBC.C  -->  MeasurePBC.o  ...
>MeasurePBC.C: In function 'int compute_pbcminmax(MoleculeList*, int, int, const float*, const Matrix4*, float*, float*)':
>MeasurePBC.C:680:9: warning: variable 'len' set but not used [-Wunused-but-set-variable]
>   float len[3];
>         ^
>echo "Compiling " MeasureRDF.C " --> " MeasureRDF.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasureRDF.C -o ../FREEBSDAMD64/MeasureRDF.o
>Compiling  MeasureRDF.C  -->  MeasureRDF.o  ...
>echo "Compiling " MeasureSurface.C " --> " MeasureSurface.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasureSurface.C -o ../FREEBSDAMD64/MeasureSurface.o
>Compiling  MeasureSurface.C  -->  MeasureSurface.o  ...
>echo "Compiling " MeasureSymmetry.C " --> " MeasureSymmetry.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MeasureSymmetry.C -o ../FREEBSDAMD64/MeasureSymmetry.o
>Compiling  MeasureSymmetry.C  -->  MeasureSymmetry.o  ...
>echo "Compiling " MobileInterface.C " --> " MobileInterface.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MobileInterface.C -o ../FREEBSDAMD64/MobileInterface.o
>Compiling  MobileInterface.C  -->  MobileInterface.o  ...
>MobileInterface.C: In function 'int mobile_listener_poll(void*, float&, float&, float&, float&, float&, float&, int&, int&, int&, int*, float*, float*, int&, int&, JString&, JString&)':
>MobileInterface.C:290:16: warning: variable 'ptrid' set but not used [-Wunused-but-set-variable]
>            int ptrid;
>                ^
>MobileInterface.C: In member function 'virtual int Mobile::check_event()':
>MobileInterface.C:515:8: warning: variable 'inControl' set but not used [-Wunused-but-set-variable]
>   bool inControl = false;
>        ^
>echo "Compiling " MobileButtons.C " --> " MobileButtons.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MobileButtons.C -o ../FREEBSDAMD64/MobileButtons.o
>Compiling  MobileButtons.C  -->  MobileButtons.o  ...
>echo "Compiling " MobileTracker.C " --> " MobileTracker.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MobileTracker.C -o ../FREEBSDAMD64/MobileTracker.o
>Compiling  MobileTracker.C  -->  MobileTracker.o  ...
>echo "Compiling " Molecule.C " --> " Molecule.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Molecule.C -o ../FREEBSDAMD64/Molecule.o
>Compiling  Molecule.C  -->  Molecule.o  ...
>echo "Compiling " MoleculeList.C " --> " MoleculeList.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MoleculeList.C -o ../FREEBSDAMD64/MoleculeList.o
>Compiling  MoleculeList.C  -->  MoleculeList.o  ...
>echo "Compiling " MoleculeGraphics.C " --> " MoleculeGraphics.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MoleculeGraphics.C -o ../FREEBSDAMD64/MoleculeGraphics.o
>Compiling  MoleculeGraphics.C  -->  MoleculeGraphics.o  ...
>echo "Compiling " MolFilePlugin.C " --> " MolFilePlugin.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MolFilePlugin.C -o ../FREEBSDAMD64/MolFilePlugin.o
>Compiling  MolFilePlugin.C  -->  MolFilePlugin.o  ...
>In file included from MolFilePlugin.h:37:0,
>                 from MolFilePlugin.C:31:
>MolFilePlugin.C: In member function 'int MolFilePlugin::read_structure(Molecule*, int, int)':
>../plugins/include/molfile_plugin.h:130:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
> #define MOLFILE_BADOPTIONS    0xFFFFFFFF /**< Detect badly behaved plugins */
>                               ^
>MolFilePlugin.C:88:19: note: in expansion of macro 'MOLFILE_BADOPTIONS'
>   if (optflags == MOLFILE_BADOPTIONS) {
>                   ^
>MolFilePlugin.C:269:13: warning: variable 'angleforces' set but not used [-Wunused-but-set-variable]
>     double *angleforces, *dihedralforces, *improperforces, *ctermforces;
>             ^
>In file included from MolFilePlugin.h:37:0,
>                 from MolFilePlugin.C:31:
>MolFilePlugin.C: In member function 'int MolFilePlugin::read_optional_structure(Molecule*, int)':
>../plugins/include/molfile_plugin.h:130:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
> #define MOLFILE_BADOPTIONS    0xFFFFFFFF /**< Detect badly behaved plugins */
>                               ^
>MolFilePlugin.C:409:19: note: in expansion of macro 'MOLFILE_BADOPTIONS'
>   if (optflags == MOLFILE_BADOPTIONS) {
>                   ^
>MolFilePlugin.C:546:13: warning: variable 'angleforces' set but not used [-Wunused-but-set-variable]
>     double *angleforces, *dihedralforces, *improperforces, *ctermforces;
>             ^
>echo "Compiling " Mouse.C " --> " Mouse.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Mouse.C -o ../FREEBSDAMD64/Mouse.o
>Compiling  Mouse.C  -->  Mouse.o  ...
>echo "Compiling " MSMSInterface.C " --> " MSMSInterface.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MSMSInterface.C -o ../FREEBSDAMD64/MSMSInterface.o
>Compiling  MSMSInterface.C  -->  MSMSInterface.o  ...
>echo "Compiling " Orbital.C " --> " Orbital.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Orbital.C -o ../FREEBSDAMD64/Orbital.o
>Compiling  Orbital.C  -->  Orbital.o  ...
>Orbital.C: In member function 'int Orbital::check_plane(int, float, int, int&)':
>Orbital.C:235:9: warning: variable 'offset' set but not used [-Wunused-but-set-variable]
>     int offset = 0;
>         ^
>echo "Compiling " OrbitalJIT.C " --> " OrbitalJIT.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c OrbitalJIT.C -o ../FREEBSDAMD64/OrbitalJIT.o
>Compiling  OrbitalJIT.C  -->  OrbitalJIT.o  ...
>echo "Compiling " PeriodicTable.C " --> " PeriodicTable.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PeriodicTable.C -o ../FREEBSDAMD64/PeriodicTable.o
>Compiling  PeriodicTable.C  -->  PeriodicTable.o  ...
>echo "Compiling " P_JoystickTool.C " --> " P_JoystickTool.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_JoystickTool.C -o ../FREEBSDAMD64/P_JoystickTool.o
>Compiling  P_JoystickTool.C  -->  P_JoystickTool.o  ...
>echo "Compiling " P_TugTool.C " --> " P_TugTool.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_TugTool.C -o ../FREEBSDAMD64/P_TugTool.o
>Compiling  P_TugTool.C  -->  P_TugTool.o  ...
>echo "Compiling " P_GrabTool.C " --> " P_GrabTool.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_GrabTool.C -o ../FREEBSDAMD64/P_GrabTool.o
>Compiling  P_GrabTool.C  -->  P_GrabTool.o  ...
>echo "Compiling " P_PrintTool.C " --> " P_PrintTool.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_PrintTool.C -o ../FREEBSDAMD64/P_PrintTool.o
>Compiling  P_PrintTool.C  -->  P_PrintTool.o  ...
>echo "Compiling " P_PinchTool.C " --> " P_PinchTool.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_PinchTool.C -o ../FREEBSDAMD64/P_PinchTool.o
>Compiling  P_PinchTool.C  -->  P_PinchTool.o  ...
>echo "Compiling " P_UIVR.C " --> " P_UIVR.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_UIVR.C -o ../FREEBSDAMD64/P_UIVR.o
>Compiling  P_UIVR.C  -->  P_UIVR.o  ...
>echo "Compiling " P_Buttons.C " --> " P_Buttons.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_Buttons.C -o ../FREEBSDAMD64/P_Buttons.o
>Compiling  P_Buttons.C  -->  P_Buttons.o  ...
>echo "Compiling " P_Tracker.C " --> " P_Tracker.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_Tracker.C -o ../FREEBSDAMD64/P_Tracker.o
>Compiling  P_Tracker.C  -->  P_Tracker.o  ...
>echo "Compiling " P_Tool.C " --> " P_Tool.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_Tool.C -o ../FREEBSDAMD64/P_Tool.o
>Compiling  P_Tool.C  -->  P_Tool.o  ...
>echo "Compiling " P_CmdTool.C " --> " P_CmdTool.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_CmdTool.C -o ../FREEBSDAMD64/P_CmdTool.o
>Compiling  P_CmdTool.C  -->  P_CmdTool.o  ...
>echo "Compiling " P_SensorConfig.C " --> " P_SensorConfig.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c P_SensorConfig.C -o ../FREEBSDAMD64/P_SensorConfig.o
>Compiling  P_SensorConfig.C  -->  P_SensorConfig.o  ...
>echo "Compiling " ParseTree.C " --> " ParseTree.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ParseTree.C -o ../FREEBSDAMD64/ParseTree.o
>Compiling  ParseTree.C  -->  ParseTree.o  ...
>ParseTree.C: In member function 'void ParseTree::eval_k_nearest(atomparser_node*, int, int*)':
>ParseTree.C:924:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
>   if (n>distances.size()) n=distances.size();
>                        ^
>echo "Compiling " PickList.C " --> " PickList.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickList.C -o ../FREEBSDAMD64/PickList.o
>Compiling  PickList.C  -->  PickList.o  ...
>echo "Compiling " PickModeAddBond.C " --> " PickModeAddBond.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeAddBond.C -o ../FREEBSDAMD64/PickModeAddBond.o
>Compiling  PickModeAddBond.C  -->  PickModeAddBond.o  ...
>echo "Compiling " PickModeCenter.C " --> " PickModeCenter.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeCenter.C -o ../FREEBSDAMD64/PickModeCenter.o
>Compiling  PickModeCenter.C  -->  PickModeCenter.o  ...
>echo "Compiling " PickModeForce.C " --> " PickModeForce.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeForce.C -o ../FREEBSDAMD64/PickModeForce.o
>Compiling  PickModeForce.C  -->  PickModeForce.o  ...
>echo "Compiling " PickModeList.C " --> " PickModeList.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeList.C -o ../FREEBSDAMD64/PickModeList.o
>Compiling  PickModeList.C  -->  PickModeList.o  ...
>echo "Compiling " PickModeMolLabel.C " --> " PickModeMolLabel.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeMolLabel.C -o ../FREEBSDAMD64/PickModeMolLabel.o
>Compiling  PickModeMolLabel.C  -->  PickModeMolLabel.o  ...
>echo "Compiling " PickModeMove.C " --> " PickModeMove.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeMove.C -o ../FREEBSDAMD64/PickModeMove.o
>Compiling  PickModeMove.C  -->  PickModeMove.o  ...
>echo "Compiling " PickModeUser.C " --> " PickModeUser.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PickModeUser.C -o ../FREEBSDAMD64/PickModeUser.o
>Compiling  PickModeUser.C  -->  PickModeUser.o  ...
>echo "Compiling " PlainTextInterp.C " --> " PlainTextInterp.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PlainTextInterp.C -o ../FREEBSDAMD64/PlainTextInterp.o
>Compiling  PlainTextInterp.C  -->  PlainTextInterp.o  ...
>echo "Compiling " PluginMgr.C " --> " PluginMgr.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PluginMgr.C -o ../FREEBSDAMD64/PluginMgr.o
>Compiling  PluginMgr.C  -->  PluginMgr.o  ...
>echo "Compiling " POV3DisplayDevice.C " --> " POV3DisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c POV3DisplayDevice.C -o ../FREEBSDAMD64/POV3DisplayDevice.o
>Compiling  POV3DisplayDevice.C  -->  POV3DisplayDevice.o  ...
>echo "Compiling " PSDisplayDevice.C " --> " PSDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c PSDisplayDevice.C -o ../FREEBSDAMD64/PSDisplayDevice.o
>Compiling  PSDisplayDevice.C  -->  PSDisplayDevice.o  ...
>echo "Compiling " QMData.C " --> " QMData.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c QMData.C -o ../FREEBSDAMD64/QMData.o
>Compiling  QMData.C  -->  QMData.o  ...
>echo "Compiling " QMTimestep.C " --> " QMTimestep.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c QMTimestep.C -o ../FREEBSDAMD64/QMTimestep.o
>Compiling  QMTimestep.C  -->  QMTimestep.o  ...
>echo "Compiling " QuickSurf.C " --> " QuickSurf.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c QuickSurf.C -o ../FREEBSDAMD64/QuickSurf.o
>Compiling  QuickSurf.C  -->  QuickSurf.o  ...
>QuickSurf.C:124:13: warning: 'void vmd_gaussdensity(int, const float*, const float*, float*, float*, const int*, float, float, float, float)' defined but not used [-Wunused-function]
> static void vmd_gaussdensity(int natoms, const float *xyzr,
>             ^
>echo "Compiling " RadianceDisplayDevice.C " --> " RadianceDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c RadianceDisplayDevice.C -o ../FREEBSDAMD64/RadianceDisplayDevice.o
>Compiling  RadianceDisplayDevice.C  -->  RadianceDisplayDevice.o  ...
>echo "Compiling " RayShadeDisplayDevice.C " --> " RayShadeDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c RayShadeDisplayDevice.C -o ../FREEBSDAMD64/RayShadeDisplayDevice.o
>Compiling  RayShadeDisplayDevice.C  -->  RayShadeDisplayDevice.o  ...
>echo "Compiling " R3dDisplayDevice.C " --> " R3dDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c R3dDisplayDevice.C -o ../FREEBSDAMD64/R3dDisplayDevice.o
>Compiling  R3dDisplayDevice.C  -->  R3dDisplayDevice.o  ...
>echo "Compiling " RenderManDisplayDevice.C " --> " RenderManDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c RenderManDisplayDevice.C -o ../FREEBSDAMD64/RenderManDisplayDevice.o
>Compiling  RenderManDisplayDevice.C  -->  RenderManDisplayDevice.o  ...
>echo "Compiling " Scene.C " --> " Scene.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Scene.C -o ../FREEBSDAMD64/Scene.o
>Compiling  Scene.C  -->  Scene.o  ...
>echo "Compiling " SnapshotDisplayDevice.C " --> " SnapshotDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SnapshotDisplayDevice.C -o ../FREEBSDAMD64/SnapshotDisplayDevice.o
>Compiling  SnapshotDisplayDevice.C  -->  SnapshotDisplayDevice.o  ...
>echo "Compiling " Spaceball.C " --> " Spaceball.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Spaceball.C -o ../FREEBSDAMD64/Spaceball.o
>Compiling  Spaceball.C  -->  Spaceball.o  ...
>echo "Compiling " SpaceballButtons.C " --> " SpaceballButtons.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SpaceballButtons.C -o ../FREEBSDAMD64/SpaceballButtons.o
>Compiling  SpaceballButtons.C  -->  SpaceballButtons.o  ...
>echo "Compiling " SpaceballTracker.C " --> " SpaceballTracker.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SpaceballTracker.C -o ../FREEBSDAMD64/SpaceballTracker.o
>Compiling  SpaceballTracker.C  -->  SpaceballTracker.o  ...
>echo "Compiling " SpatialSearch.C " --> " SpatialSearch.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SpatialSearch.C -o ../FREEBSDAMD64/SpatialSearch.o
>Compiling  SpatialSearch.C  -->  SpatialSearch.o  ...
>echo "Compiling " SpringTool.C " --> " SpringTool.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SpringTool.C -o ../FREEBSDAMD64/SpringTool.o
>Compiling  SpringTool.C  -->  SpringTool.o  ...
>echo "Compiling " Stage.C " --> " Stage.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Stage.C -o ../FREEBSDAMD64/Stage.o
>Compiling  Stage.C  -->  Stage.o  ...
>echo "Compiling " STLDisplayDevice.C " --> " STLDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c STLDisplayDevice.C -o ../FREEBSDAMD64/STLDisplayDevice.o
>Compiling  STLDisplayDevice.C  -->  STLDisplayDevice.o  ...
>echo "Compiling " Stride.C " --> " Stride.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Stride.C -o ../FREEBSDAMD64/Stride.o
>Compiling  Stride.C  -->  Stride.o  ...
>echo "Compiling " Surf.C " --> " Surf.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Surf.C -o ../FREEBSDAMD64/Surf.o
>Compiling  Surf.C  -->  Surf.o  ...
>echo "Compiling " SymbolTable.C " --> " SymbolTable.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SymbolTable.C -o ../FREEBSDAMD64/SymbolTable.o
>Compiling  SymbolTable.C  -->  SymbolTable.o  ...
>echo "Compiling " TachyonDisplayDevice.C " --> " TachyonDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TachyonDisplayDevice.C -o ../FREEBSDAMD64/TachyonDisplayDevice.o
>Compiling  TachyonDisplayDevice.C  -->  TachyonDisplayDevice.o  ...
>echo "Compiling " Timestep.C " --> " Timestep.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Timestep.C -o ../FREEBSDAMD64/Timestep.o
>Compiling  Timestep.C  -->  Timestep.o  ...
>echo "Compiling " UIObject.C " --> " UIObject.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c UIObject.C -o ../FREEBSDAMD64/UIObject.o
>Compiling  UIObject.C  -->  UIObject.o  ...
>echo "Compiling " UIText.C " --> " UIText.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c UIText.C -o ../FREEBSDAMD64/UIText.o
>Compiling  UIText.C  -->  UIText.o  ...
>echo "Compiling " VMDApp.C " --> " VMDApp.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDApp.C -o ../FREEBSDAMD64/VMDApp.o
>Compiling  VMDApp.C  -->  VMDApp.o  ...
>VMDApp.C: In member function 'int VMDApp::molecule_new(const char*, int, int)':
>VMDApp.C:1380:49: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>     float defcharge = newmol->default_charge("X");
>                                                 ^
>VMDApp.C:1385:45: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>     float defmass = newmol->default_mass("X");
>                                             ^
>VMDApp.C:1390:49: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>     float defradius = newmol->default_radius("X");
>                                                 ^
>VMDApp.C:1405:70: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>       if (0 > newmol->add_atom("X", "X", 0, "UNK", 0, "", "", " ", "")) {
>                                                                      ^
>VMDApp.C:1405:70: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>VMDApp.C:1405:70: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>VMDApp.C:1405:70: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>echo "Compiling " VMDCollab.C " --> " VMDCollab.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDCollab.C -o ../FREEBSDAMD64/VMDCollab.o
>Compiling  VMDCollab.C  -->  VMDCollab.o  ...
>echo "Compiling " VMDDir.C " --> " VMDDir.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDDir.C -o ../FREEBSDAMD64/VMDDir.o
>Compiling  VMDDir.C  -->  VMDDir.o  ...
>echo "Compiling " VMDDisplayList.C " --> " VMDDisplayList.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDDisplayList.C -o ../FREEBSDAMD64/VMDDisplayList.o
>Compiling  VMDDisplayList.C  -->  VMDDisplayList.o  ...
>echo "Compiling " VMDMenu.C " --> " VMDMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDMenu.C -o ../FREEBSDAMD64/VMDMenu.o
>Compiling  VMDMenu.C  -->  VMDMenu.o  ...
>echo "Compiling " VMDQuat.C " --> " VMDQuat.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDQuat.C -o ../FREEBSDAMD64/VMDQuat.o
>Compiling  VMDQuat.C  -->  VMDQuat.o  ...
>echo "Compiling " VMDTitle.C " --> " VMDTitle.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDTitle.C -o ../FREEBSDAMD64/VMDTitle.o
>Compiling  VMDTitle.C  -->  VMDTitle.o  ...
>echo "Compiling " VMDThreads.C " --> " VMDThreads.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDThreads.C -o ../FREEBSDAMD64/VMDThreads.o
>Compiling  VMDThreads.C  -->  VMDThreads.o  ...
>echo "Compiling " VolCPotential.C " --> " VolCPotential.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VolCPotential.C -o ../FREEBSDAMD64/VolCPotential.o
>Compiling  VolCPotential.C  -->  VolCPotential.o  ...
>echo "Compiling " VolMapCreate.C " --> " VolMapCreate.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VolMapCreate.C -o ../FREEBSDAMD64/VolMapCreate.o
>Compiling  VolMapCreate.C  -->  VolMapCreate.o  ...
>echo "Compiling " VolMapCreateILS.C " --> " VolMapCreateILS.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VolMapCreateILS.C -o ../FREEBSDAMD64/VolMapCreateILS.o
>Compiling  VolMapCreateILS.C  -->  VolMapCreateILS.o  ...
>VolMapCreateILS.C: In member function 'void VolMapCreateILS::get_eff_proberadius()':
>VolMapCreateILS.C:831:11: warning: variable 'Ropt' set but not used [-Wunused-but-set-variable]
>     float Ropt = 0.f;
>           ^
>echo "Compiling " VolumetricData.C " --> " VolumetricData.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VolumetricData.C -o ../FREEBSDAMD64/VolumetricData.o
>Compiling  VolumetricData.C  -->  VolumetricData.o  ...
>echo "Compiling " VolumeTexture.C " --> " VolumeTexture.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VolumeTexture.C -o ../FREEBSDAMD64/VolumeTexture.o
>Compiling  VolumeTexture.C  -->  VolumeTexture.o  ...
>echo "Compiling " VrmlDisplayDevice.C " --> " VrmlDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VrmlDisplayDevice.C -o ../FREEBSDAMD64/VrmlDisplayDevice.o
>Compiling  VrmlDisplayDevice.C  -->  VrmlDisplayDevice.o  ...
>echo "Compiling " Vrml2DisplayDevice.C " --> " Vrml2DisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c Vrml2DisplayDevice.C -o ../FREEBSDAMD64/Vrml2DisplayDevice.o
>Compiling  Vrml2DisplayDevice.C  -->  Vrml2DisplayDevice.o  ...
>Vrml2DisplayDevice.C: In member function 'virtual void Vrml2DisplayDevice::text(float*, float, float, const char*)':
>Vrml2DisplayDevice.C:61:19: warning: variable 'textthickness' set but not used [-Wunused-but-set-variable]
>   float textsize, textthickness;
>                   ^
>echo "Compiling " WavefrontDisplayDevice.C " --> " WavefrontDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c WavefrontDisplayDevice.C -o ../FREEBSDAMD64/WavefrontDisplayDevice.o
>Compiling  WavefrontDisplayDevice.C  -->  WavefrontDisplayDevice.o  ...
>echo "Compiling " WKFThreads.C " --> " WKFThreads.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c WKFThreads.C -o ../FREEBSDAMD64/WKFThreads.o
>Compiling  WKFThreads.C  -->  WKFThreads.o  ...
>echo "Compiling " WKFUtils.C " --> " WKFUtils.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c WKFUtils.C -o ../FREEBSDAMD64/WKFUtils.o
>Compiling  WKFUtils.C  -->  WKFUtils.o  ...
>echo "Compiling " utilities.C " --> " utilities.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c utilities.C -o ../FREEBSDAMD64/utilities.o
>Compiling  utilities.C  -->  utilities.o  ...
>echo "Compiling " vmd.C " --> " vmd.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c vmd.C -o ../FREEBSDAMD64/vmd.o
>Compiling  vmd.C  -->  vmd.o  ...
>echo "Compiling " vmdmain.C " --> " vmdmain.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c vmdmain.C -o ../FREEBSDAMD64/vmdmain.o
>Compiling  vmdmain.C  -->  vmdmain.o  ...
>echo "Compiling " X3DDisplayDevice.C " --> " X3DDisplayDevice.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c X3DDisplayDevice.C -o ../FREEBSDAMD64/X3DDisplayDevice.o
>Compiling  X3DDisplayDevice.C  -->  X3DDisplayDevice.o  ...
>echo "Compiling " ColorInfo.C " --> " ColorInfo.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ColorInfo.C -o ../FREEBSDAMD64/ColorInfo.o
>Compiling  ColorInfo.C  -->  ColorInfo.o  ...
>echo "Compiling " TclCommands.C " --> " TclCommands.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclCommands.C -o ../FREEBSDAMD64/TclCommands.o
>Compiling  TclCommands.C  -->  TclCommands.o  ...
>echo "Compiling " TclMeasure.C " --> " TclMeasure.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclMeasure.C -o ../FREEBSDAMD64/TclMeasure.o
>Compiling  TclMeasure.C  -->  TclMeasure.o  ...
>echo "Compiling " TclMolInfo.C " --> " TclMolInfo.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclMolInfo.C -o ../FREEBSDAMD64/TclMolInfo.o
>Compiling  TclMolInfo.C  -->  TclMolInfo.o  ...
>echo "Compiling " TclTextInterp.C " --> " TclTextInterp.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclTextInterp.C -o ../FREEBSDAMD64/TclTextInterp.o
>Compiling  TclTextInterp.C  -->  TclTextInterp.o  ...
>echo "Compiling " TclVec.C " --> " TclVec.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclVec.C -o ../FREEBSDAMD64/TclVec.o
>Compiling  TclVec.C  -->  TclVec.o  ...
>echo "Compiling " TclGraphics.C " --> " TclGraphics.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclGraphics.C -o ../FREEBSDAMD64/TclGraphics.o
>Compiling  TclGraphics.C  -->  TclGraphics.o  ...
>echo "Compiling " TclVolMap.C " --> " TclVolMap.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c TclVolMap.C -o ../FREEBSDAMD64/TclVolMap.o
>Compiling  TclVolMap.C  -->  TclVolMap.o  ...
>echo "Compiling " cmd_animate.C " --> " cmd_animate.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_animate.C -o ../FREEBSDAMD64/cmd_animate.o
>Compiling  cmd_animate.C  -->  cmd_animate.o  ...
>cmd_animate.C: In function 'int text_cmd_animate(ClientData, Tcl_Interp*, int, const char**)':
>cmd_animate.C:320:113: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>         Tcl_SetResult(interp, "ERROR: animate: Molecule in selection must match animation molecule.", TCL_STATIC);
>                                                                                                                 ^
>cmd_animate.C: In function 'int cmd_rawtimestep(ClientData, Tcl_Interp*, int, Tcl_Obj* const*)':
>cmd_animate.C:391:67: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>     Tcl_SetResult(interp, "rawtimestep: invalid molid", TCL_STATIC);
>                                                                   ^
>cmd_animate.C:397:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>     Tcl_SetResult(interp, "rawtimestep: could not read bytearray", TCL_STATIC);
>                                                                              ^
>cmd_animate.C:425:25: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>               TCL_STATIC);
>                         ^
>cmd_animate.C:432:21: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>           TCL_STATIC);
>                     ^
>cmd_animate.C:440:71: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>     Tcl_SetResult(interp, "rawtimestep: not enough bytes!", TCL_STATIC);
>                                                                       ^
>cmd_animate.C:448:78: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>     Tcl_SetResult(interp, "rawtimestep: Unable to find timestep!", TCL_STATIC);
>                                                                              ^
>echo "Compiling " cmd_collab.C " --> " cmd_collab.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_collab.C -o ../FREEBSDAMD64/cmd_collab.o
>Compiling  cmd_collab.C  -->  cmd_collab.o  ...
>cmd_collab.C: In function 'int text_cmd_collab(ClientData, Tcl_Interp*, int, const char**)':
>cmd_collab.C:58:17: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>       TCL_STATIC);
>                 ^
>echo "Compiling " cmd_color.C " --> " cmd_color.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_color.C -o ../FREEBSDAMD64/cmd_color.o
>Compiling  cmd_color.C  -->  cmd_color.o  ...
>cmd_color.C: In function 'int text_cmd_color(ClientData, Tcl_Interp*, int, const char**)':
>cmd_color.C:197:67: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>       Tcl_SetResult(interp, "Error adding color item.", TCL_STATIC);
>                                                                   ^
>echo "Compiling " cmd_display.C " --> " cmd_display.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_display.C -o ../FREEBSDAMD64/cmd_display.o
>Compiling  cmd_display.C  -->  cmd_display.o  ...
>echo "Compiling " cmd_imd.C " --> " cmd_imd.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_imd.C -o ../FREEBSDAMD64/cmd_imd.o
>Compiling  cmd_imd.C  -->  cmd_imd.o  ...
>echo "Compiling " cmd_label.C " --> " cmd_label.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_label.C -o ../FREEBSDAMD64/cmd_label.o
>Compiling  cmd_label.C  -->  cmd_label.o  ...
>cmd_label.C: In function 'int text_cmd_label(ClientData, Tcl_Interp*, int, const char**)':
>cmd_label.C:277:21: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>           TCL_STATIC);
>                     ^
>cmd_label.C:296:21: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>           TCL_STATIC);
>                     ^
>cmd_label.C:307:89: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>         Tcl_SetResult(interp, "label textoffset: Invalid geometry specified", TCL_STATIC);
>                                                                                         ^
>cmd_label.C:324:89: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>         Tcl_SetResult(interp, "label textoffset: Invalid geometry specified", TCL_STATIC);
>                                                                                         ^
>cmd_label.C:329:21: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>           TCL_STATIC);
>                     ^
>cmd_label.C:340:89: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>         Tcl_SetResult(interp, "label textformat: Invalid geometry specified", TCL_STATIC);
>                                                                                         ^
>cmd_label.C:349:69: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>         Tcl_SetResult(interp, "label textformat failed.", TCL_STATIC);
>                                                                     ^
>cmd_label.C:354:31: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>                     TCL_STATIC);
>                               ^
>echo "Compiling " cmd_material.C " --> " cmd_material.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_material.C -o ../FREEBSDAMD64/cmd_material.o
>Compiling  cmd_material.C  -->  cmd_material.o  ...
>echo "Compiling " cmd_menu.C " --> " cmd_menu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_menu.C -o ../FREEBSDAMD64/cmd_menu.o
>Compiling  cmd_menu.C  -->  cmd_menu.o  ...
>echo "Compiling " cmd_mobile.C " --> " cmd_mobile.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_mobile.C -o ../FREEBSDAMD64/cmd_mobile.o
>Compiling  cmd_mobile.C  -->  cmd_mobile.o  ...
>echo "Compiling " cmd_mol.C " --> " cmd_mol.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_mol.C -o ../FREEBSDAMD64/cmd_mol.o
>Compiling  cmd_mol.C  -->  cmd_mol.o  ...
>cmd_mol.C: In function 'int text_cmd_mol(ClientData, Tcl_Interp*, int, const char**)':
>cmd_mol.C:1118:102: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>         Tcl_SetResult(interp, "Usage: mol default [color | style | selection | material]", TCL_STATIC);
>                                                                                                      ^
>cmd_mol.C:1144:110: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>         Tcl_SetResult(interp, "Usage: mol default [color | style | selection | material] <value>", TCL_STATIC);
>                                                                                                              ^
>echo "Compiling " cmd_mouse.C " --> " cmd_mouse.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_mouse.C -o ../FREEBSDAMD64/cmd_mouse.o
>Compiling  cmd_mouse.C  -->  cmd_mouse.o  ...
>echo "Compiling " cmd_parallel.C " --> " cmd_parallel.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_parallel.C -o ../FREEBSDAMD64/cmd_parallel.o
>Compiling  cmd_parallel.C  -->  cmd_parallel.o  ...
>echo "Compiling " cmd_plugin.C " --> " cmd_plugin.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_plugin.C -o ../FREEBSDAMD64/cmd_plugin.o
>Compiling  cmd_plugin.C  -->  cmd_plugin.o  ...
>echo "Compiling " cmd_render.C " --> " cmd_render.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_render.C -o ../FREEBSDAMD64/cmd_render.o
>Compiling  cmd_render.C  -->  cmd_render.o  ...
>cmd_render.C: In function 'int text_cmd_tkrender(ClientData, Tcl_Interp*, int, const char**)':
>cmd_render.C:199:58: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>     Tcl_SetResult(interp, "Tk not available.", TCL_STATIC);
>                                                          ^
>cmd_render.C:204:19: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>         TCL_STATIC);
>                   ^
>cmd_render.C:221:19: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
>         TCL_STATIC);
>                   ^
>echo "Compiling " cmd_spaceball.C " --> " cmd_spaceball.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_spaceball.C -o ../FREEBSDAMD64/cmd_spaceball.o
>Compiling  cmd_spaceball.C  -->  cmd_spaceball.o  ...
>echo "Compiling " cmd_tool.C " --> " cmd_tool.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_tool.C -o ../FREEBSDAMD64/cmd_tool.o
>Compiling  cmd_tool.C  -->  cmd_tool.o  ...
>echo "Compiling " cmd_trans.C " --> " cmd_trans.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_trans.C -o ../FREEBSDAMD64/cmd_trans.o
>Compiling  cmd_trans.C  -->  cmd_trans.o  ...
>echo "Compiling " cmd_user.C " --> " cmd_user.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_user.C -o ../FREEBSDAMD64/cmd_user.o
>Compiling  cmd_user.C  -->  cmd_user.o  ...
>echo "Compiling " cmd_util.C " --> " cmd_util.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_util.C -o ../FREEBSDAMD64/cmd_util.o
>Compiling  cmd_util.C  -->  cmd_util.o  ...
>echo "Compiling " cmd_vmdbench.C " --> " cmd_vmdbench.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c cmd_vmdbench.C -o ../FREEBSDAMD64/cmd_vmdbench.o
>Compiling  cmd_vmdbench.C  -->  cmd_vmdbench.o  ...
>cmd_vmdbench.C: In function 'int text_cmd_vmdbench(ClientData, Tcl_Interp*, int, const char**)':
>cmd_vmdbench.C:49:11: warning: unused variable 'app' [-Wunused-variable]
>   VMDApp *app = (VMDApp *)cd;
>           ^
>echo "Compiling " tcl_commands.C " --> " tcl_commands.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c tcl_commands.C -o ../FREEBSDAMD64/tcl_commands.o
>Compiling  tcl_commands.C  -->  tcl_commands.o  ...
>echo "Compiling " VMDTkMenu.C " --> " VMDTkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDTkMenu.C -o ../FREEBSDAMD64/VMDTkMenu.o
>Compiling  VMDTkMenu.C  -->  VMDTkMenu.o  ...
>echo "Compiling " ColorFltkMenu.C " --> " ColorFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ColorFltkMenu.C -o ../FREEBSDAMD64/ColorFltkMenu.o
>Compiling  ColorFltkMenu.C  -->  ColorFltkMenu.o  ...
>echo "Compiling " DisplayFltkMenu.C " --> " DisplayFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c DisplayFltkMenu.C -o ../FREEBSDAMD64/DisplayFltkMenu.o
>Compiling  DisplayFltkMenu.C  -->  DisplayFltkMenu.o  ...
>echo "Compiling " FileChooserFltkMenu.C " --> " FileChooserFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c FileChooserFltkMenu.C -o ../FREEBSDAMD64/FileChooserFltkMenu.o
>Compiling  FileChooserFltkMenu.C  -->  FileChooserFltkMenu.o  ...
>echo "Compiling " GraphicsFltkMenu.C " --> " GraphicsFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GraphicsFltkMenu.C -o ../FREEBSDAMD64/GraphicsFltkMenu.o
>Compiling  GraphicsFltkMenu.C  -->  GraphicsFltkMenu.o  ...
>echo "Compiling " SelectionBuilder.C " --> " SelectionBuilder.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SelectionBuilder.C -o ../FREEBSDAMD64/SelectionBuilder.o
>Compiling  SelectionBuilder.C  -->  SelectionBuilder.o  ...
>echo "Compiling " GeometryFltkMenu.C " --> " GeometryFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c GeometryFltkMenu.C -o ../FREEBSDAMD64/GeometryFltkMenu.o
>Compiling  GeometryFltkMenu.C  -->  GeometryFltkMenu.o  ...
>echo "Compiling " MaterialFltkMenu.C " --> " MaterialFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MaterialFltkMenu.C -o ../FREEBSDAMD64/MaterialFltkMenu.o
>Compiling  MaterialFltkMenu.C  -->  MaterialFltkMenu.o  ...
>echo "Compiling " MolBrowser.C " --> " MolBrowser.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MolBrowser.C -o ../FREEBSDAMD64/MolBrowser.o
>Compiling  MolBrowser.C  -->  MolBrowser.o  ...
>echo "Compiling " RenderFltkMenu.C " --> " RenderFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c RenderFltkMenu.C -o ../FREEBSDAMD64/RenderFltkMenu.o
>Compiling  RenderFltkMenu.C  -->  RenderFltkMenu.o  ...
>echo "Compiling " SaveTrajectoryFltkMenu.C " --> " SaveTrajectoryFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c SaveTrajectoryFltkMenu.C -o ../FREEBSDAMD64/SaveTrajectoryFltkMenu.o
>Compiling  SaveTrajectoryFltkMenu.C  -->  SaveTrajectoryFltkMenu.o  ...
>echo "Compiling " VMDFltkMenu.C " --> " VMDFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c VMDFltkMenu.C -o ../FREEBSDAMD64/VMDFltkMenu.o
>Compiling  VMDFltkMenu.C  -->  VMDFltkMenu.o  ...
>echo "Compiling " MainFltkMenu.C " --> " MainFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c MainFltkMenu.C -o ../FREEBSDAMD64/MainFltkMenu.o
>Compiling  MainFltkMenu.C  -->  MainFltkMenu.o  ...
>echo "Compiling " ToolFltkMenu.C " --> " ToolFltkMenu.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c ToolFltkMenu.C -o ../FREEBSDAMD64/ToolFltkMenu.o
>Compiling  ToolFltkMenu.C  -->  ToolFltkMenu.o  ...
>echo "Compiling " frame_selector.C " --> " frame_selector.o " ..."; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c frame_selector.C -o ../FREEBSDAMD64/frame_selector.o
>Compiling  frame_selector.C  -->  frame_selector.o  ...
>echo "Compiling " hash.c " --> " hash.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c hash.c -o ../FREEBSDAMD64/hash.o
>Compiling  hash.c  -->  hash.o  ...
>echo "Compiling " inthash.c " --> " inthash.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c inthash.c -o ../FREEBSDAMD64/inthash.o
>Compiling  inthash.c  -->  inthash.o  ...
>echo "Compiling " intstack.c " --> " intstack.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c intstack.c -o ../FREEBSDAMD64/intstack.o
>Compiling  intstack.c  -->  intstack.o  ...
>echo "Compiling " msmpot.c " --> " msmpot.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c msmpot.c -o ../FREEBSDAMD64/msmpot.o
>Compiling  msmpot.c  -->  msmpot.o  ...
>echo "Compiling " msmpot_compute.c " --> " msmpot_compute.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c msmpot_compute.c -o ../FREEBSDAMD64/msmpot_compute.o
>Compiling  msmpot_compute.c  -->  msmpot_compute.o  ...
>echo "Compiling " msmpot_cubic.c " --> " msmpot_cubic.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c msmpot_cubic.c -o ../FREEBSDAMD64/msmpot_cubic.o
>Compiling  msmpot_cubic.c  -->  msmpot_cubic.o  ...
>echo "Compiling " msmpot_setup.c " --> " msmpot_setup.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c msmpot_setup.c -o ../FREEBSDAMD64/msmpot_setup.o
>Compiling  msmpot_setup.c  -->  msmpot_setup.o  ...
>echo "Compiling " vmdsock.c " --> " vmdsock.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c vmdsock.c -o ../FREEBSDAMD64/vmdsock.o
>Compiling  vmdsock.c  -->  vmdsock.o  ...
>vmdsock.c: In function 'vmdsock_accept':
>vmdsock.c:133:30: warning: pointer targets in passing argument 3 of 'accept' differ in signedness [-Wpointer-sign]
>   rc = accept(s->sd, (struct sockaddr *) &s->addr, &len);
>                              ^
>In file included from vmdsock.c:40:0:
>/usr/include/sys/socket.h:596:5: note: expected 'socklen_t *' but argument is of type 'int *'
> int accept(int, struct sockaddr * __restrict, socklen_t * __restrict);
>     ^
>echo "Compiling " vmddlopen.c " --> " vmddlopen.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c vmddlopen.c -o ../FREEBSDAMD64/vmddlopen.o
>Compiling  vmddlopen.c  -->  vmddlopen.o  ...
>echo "Compiling " pcre.c " --> " pcre.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c pcre.c -o ../FREEBSDAMD64/pcre.o
>Compiling  pcre.c  -->  pcre.o  ...
>echo "Compiling " fitrms.c " --> " fitrms.o " ..."; \
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -m64 -Wall -O3 -ffast-math -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -c fitrms.c -o ../FREEBSDAMD64/fitrms.o
>Compiling  fitrms.c  -->  fitrms.o  ...
>fitrms.c: In function 'MatrixFitRMS':
>fitrms.c:109:32: warning: variable 'ix' set but not used [-Wunused-but-set-variable]
>   int a, b, c, maxiter, iters, ix, iy, iz;
>                                ^
>echo "Linking " vmd_FREEBSDAMD64 "..."; \
>cd ../FREEBSDAMD64 ; \
>if [ ! -r ./foobar ]; then \
>  ln -s ../src/foobar ./foobar ; \
>fi; \
>g++48 -O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48 -m64 -Wall -O3 -ffast-math  -DARCH_FREEBSDAMD64 -DVMDOPENGL -DVMDIMD -DVMDLIBTACHYON -DVMDTHREADS -DWKFTHREADS -DUSEPOSIXTHREADS -D_REENTRANT -DVMDQUICKSURF -DVMDWITHCARBS -DVMDPOLYHEDRA -DVMDSURF -DVMDMSMS -DVMDPBCSMOOTH -DVMDTCL -DVMDTK  -DVMDSTATICPLUGINS  -DVMDGUI -DVMDFLTK  -DGLX_GLXEXT_LEGACY -I/usr/local/include  -I../lib/tachyon/src  -I/usr/local/include/tcl8.5 -I/usr/local/include/tk8.5 -I../plugins/include -I../plugins/FREEBSDAMD64/molfile -I../lib/netcdf/include -I../lib/fltk/include -I. -I../src -o vmd_FREEBSDAMD64 OpenGLDisplayDevice.o OpenGLExtensions.o OpenGLRenderer.o OpenGLShader.o OpenGLCache.o IMDMgr.o IMDSim.o IMDSimThread.o CmdIMD.o imd.o LibTachyonDisplayDevice.o Animation.o ArtDisplayDevice.o AtomColor.o AtomParser.o AtomLexer.o AtomRep.o AtomSel.o Axes.o BaseMolecule.o Benchmark.o BondSearch.o CmdAnimate.o CmdColor.o CmdDisplay.o CmdLabel.o CmdMaterial.o CmdMenu.o CmdMol.o CmdRender.o CmdTrans.o CommandQueue.o CoorPluginData.o CUDAAccel.o DisplayDevice.o Displayable.o DisplayRocker.o DispCmds.o DrawMolecule.o DrawMolItem.o DrawMolItem2.o DrawMolItemRibbons.o DrawMolItemMSMS.o DrawMolItemRings.o DrawMolItemOrbital.o DrawMolItemQuickSurf.o DrawMolItemSurface.o DrawMolItemVolume.o DrawForce.o DrawRingsUtils.o FileRenderList.o FileRenderer.o FPS.o GelatoDisplayDevice.o GeometryAngle.o GeometryAtom.o GeometryBond.o GeometryDihedral.o GeometryList.o GeometryMol.o GeometrySpring.o Hershey.o Inform.o ImageIO.o Isosurface.o JRegex.o JString.o macosxvmdstart.o MaterialList.o Matrix4.o MayaDisplayDevice.o Measure.o MeasureCluster.o MeasurePBC.o MeasureRDF.o MeasureSurface.o MeasureSymmetry.o MobileInterface.o MobileButtons.o MobileTracker.o Molecule.o MoleculeList.o MoleculeGraphics.o MolFilePlugin.o Mouse.o MSMSInterface.o Orbital.o OrbitalJIT.o PeriodicTable.o P_JoystickTool.o P_TugTool.o P_GrabTool.o P_PrintTool.o P_PinchTool.o P_UIVR.o P_Buttons.o P_Tracker.o P_Tool.o P_CmdTool.o P_SensorConfig.o ParseTree.o PickList.o PickModeAddBond.o PickModeCenter.o PickModeForce.o PickModeList.o PickModeMolLabel.o PickModeMove.o PickModeUser.o PlainTextInterp.o PluginMgr.o POV3DisplayDevice.o PSDisplayDevice.o QMData.o QMTimestep.o QuickSurf.o RadianceDisplayDevice.o RayShadeDisplayDevice.o R3dDisplayDevice.o RenderManDisplayDevice.o Scene.o SnapshotDisplayDevice.o Spaceball.o SpaceballButtons.o SpaceballTracker.o SpatialSearch.o SpringTool.o Stage.o STLDisplayDevice.o Stride.o Surf.o SymbolTable.o TachyonDisplayDevice.o Timestep.o UIObject.o UIText.o VMDApp.o VMDCollab.o VMDDir.o VMDDisplayList.o VMDMenu.o VMDQuat.o VMDTitle.o VMDThreads.o VolCPotential.o VolMapCreate.o VolMapCreateILS.o VolumetricData.o VolumeTexture.o VrmlDisplayDevice.o Vrml2DisplayDevice.o WavefrontDisplayDevice.o WKFThreads.o WKFUtils.o utilities.o vmd.o vmdmain.o X3DDisplayDevice.o ColorInfo.o TclCommands.o TclMeasure.o TclMolInfo.o TclTextInterp.o TclVec.o TclGraphics.o TclVolMap.o cmd_animate.o cmd_collab.o cmd_color.o cmd_display.o cmd_imd.o cmd_label.o cmd_material.o cmd_menu.o cmd_mobile.o cmd_mol.o cmd_mouse.o cmd_parallel.o cmd_plugin.o cmd_render.o cmd_spaceball.o cmd_tool.o cmd_trans.o cmd_user.o cmd_util.o cmd_vmdbench.o tcl_commands.o VMDTkMenu.o ColorFltkMenu.o DisplayFltkMenu.o FileChooserFltkMenu.o GraphicsFltkMenu.o SelectionBuilder.o GeometryFltkMenu.o MaterialFltkMenu.o MolBrowser.o RenderFltkMenu.o SaveTrajectoryFltkMenu.o VMDFltkMenu.o MainFltkMenu.o ToolFltkMenu.o frame_selector.o hash.o inthash.o intstack.o msmpot.o msmpot_compute.o msmpot_cubic.o msmpot_setup.o vmdsock.o vmddlopen.o pcre.o fitrms.o  -L/usr/local/lib -L/usr/local/lib  -L../lib/tachyon/compile/bsd  -L../lib/tcl/lib_FREEBSDAMD64 -L../lib/tk/lib_FREEBSDAMD64  -L../plugins/FREEBSDAMD64/molfile -L../lib/netcdf/lib_FREEBSDAMD64 -L../lib/fltk/FREEBSDAMD64  -lGL -lGLU  -ltachyon -pthread -ltk85 -lX11 -ltcl85  -lmolfile_plugin -lnetcdf -lfltk -lX11 -lm   -Xlinker -export-dynamic ; 
>Linking  vmd_FREEBSDAMD64 ...
>Stride.o: é¢æ° `ss_from_stride(DrawMolecule*)' å:
>Stride.C:(.text+0x50): è¦å: warning: tempnam() possibly used unsafely; consider using mkstemp()
>echo No resource compiler required on this platform.
>No resource compiler required on this platform.
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/src' ããåºã¾ã
>/usr/bin/env XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work NO_PIE=yes SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" PREFIX=/usr/local  LOCALBASE=/usr/local  LIBDIR="/usr/lib"  CC="gcc48" CFLAGS="-O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing"  CPP="cpp48" CPPFLAGS=""  LDFLAGS=" -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48" LIBS=""  CXX="g++48" CXXFLAGS="-O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48"  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -o root -g wheel -m 555"  BSD_INSTALL_LIB="install  -s -o root -g wheel -m 444"  BSD_INSTALL_SCRIPT="install  -o root -g wheel -m 555"  BSD_INSTALL_DATA="install  -o root -g wheel -m 0644"  BSD_INSTALL_MAN="install  -o root -g wheel -m 444" gmake depend -C /usr/ports/science/vmd/work/vmd-1.9.1/lib/surf  && /usr/bin/env XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work NO_PIE=yes SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" PREFIX=/usr/local  LOCALBASE=/usr/local  LIBDIR="/usr/lib"  CC="gcc48" CFLAGS="-O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing"  CPP="cpp48" CPPFLAGS=""  LDFLAGS=" -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48" LIBS=""  CXX="g++48" CXXFLAGS="-O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48"  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -o root -g wheel -m 555"  BSD_INSTALL_LIB="install  -s -o root -g wheel -m 444"  BSD_INSTALL_SCRIPT="install  -o root -g wheel -m 555"  BSD_INSTALL_DATA="install  -o root -g wheel -m 0644"  BSD_INSTALL_MAN="install  -o root -g wheel -m 444" gmake surf -C  /usr/ports/science/vmd/work/vmd-1.9.1/lib/surf  && /bin/mv /usr/ports/science/vmd/work/vmd-1.9.1/lib/surf/surf  /usr/ports/science/vmd/work/vmd-1.9.1/lib/surf/surf_FREEBSDAMD64
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/surf' ã«å¥ãã¾ã
>making dependencies...
>done.
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/surf' ããåºã¾ã
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/surf' ã«å¥ãã¾ã
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c surf.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c io.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c compute.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c dual.c
>dual.c: In function 'dualize_planes_to_points':
>cc1: warning: iteration 1u invokes undefined behavior [-Waggressive-loop-optimizations]
>dual.c:305:5: note: containing loop
>     for(perturbation = j = 1; j < 4; j++)
>     ^
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c utils.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c lp.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c chull.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c tessel_cases.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c tessel_patches.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c tessel_convex.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c tessel_concave.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  -c tessel_torus.c
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2  -I.  surf.o io.o compute.o dual.o utils.o lp.o chull.o tessel_cases.o tessel_patches.o tessel_convex.o tessel_concave.o tessel_torus.o   -o surf -lm
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/surf' ããåºã¾ã
>/usr/bin/env XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work NO_PIE=yes SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" PREFIX=/usr/local  LOCALBASE=/usr/local  LIBDIR="/usr/lib"  CC="gcc48" CFLAGS="-O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing"  CPP="cpp48" CPPFLAGS=""  LDFLAGS=" -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48" LIBS=""  CXX="g++48" CXXFLAGS="-O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48"  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -o root -g wheel -m 555"  BSD_INSTALL_LIB="install  -s -o root -g wheel -m 444"  BSD_INSTALL_SCRIPT="install  -o root -g wheel -m 555"  BSD_INSTALL_DATA="install  -o root -g wheel -m 0644"  BSD_INSTALL_MAN="install  -o root -g wheel -m 444" gmake -C /usr/ports/science/vmd/work/vmd-1.9.1/lib/stride  && /bin/mv /usr/ports/science/vmd/work/vmd-1.9.1/lib/stride/stride  /usr/ports/science/vmd/work/vmd-1.9.1/lib/stride/stride_FREEBSDAMD64
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/stride' ã«å¥ãã¾ã
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c stride.c -o stride.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c splitstr.c -o splitstr.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c rdpdb.c -o rdpdb.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c initchn.c -o initchn.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c geometry.c -o geometry.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c thr2one.c -o thr2one.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c one2thr.c -o one2thr.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c filename.c -o filename.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c tolostr.c -o tolostr.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c strutil.c -o strutil.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c place_h.c -o place_h.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c hbenergy.c -o hbenergy.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c memory.c -o memory.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c helix.c -o helix.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c sheet.c -o sheet.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c rdmap.c -o rdmap.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c phipsi.c -o phipsi.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c command.c -o command.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c molscr.c -o molscr.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c die.c -o die.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c hydrbond.c -o hydrbond.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c mergepat.c -o mergepat.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c fillasn.c -o fillasn.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c escape.c -o escape.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_jrnl.c -o p_jrnl.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_rem.c -o p_rem.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_atom.c -o p_atom.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_helix.c -o p_helix.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_sheet.c -o p_sheet.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_turn.c -o p_turn.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_ssbond.c -o p_ssbond.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_expdta.c -o p_expdta.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_model.c -o p_model.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_compnd.c -o p_compnd.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c report.c -o report.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c nsc.c -o nsc.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c area.c -o area.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c ssbond.c -o ssbond.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c chk_res.c -o chk_res.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c chk_atom.c -o chk_atom.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c turn.c -o turn.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c pdbasn.c -o pdbasn.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c dssp.c -o dssp.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c outseq.c -o outseq.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c chkchain.c -o chkchain.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c elem.c -o elem.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c measure.c -o measure.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c asngener.c -o asngener.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c p_endmdl.c -o p_endmdl.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 -c stred.c -o stred.o
>gcc48 -O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing -O2 stride.o splitstr.o rdpdb.o initchn.o geometry.o thr2one.o one2thr.o filename.o tolostr.o strutil.o place_h.o hbenergy.o memory.o helix.o sheet.o rdmap.o phipsi.o command.o molscr.o die.o hydrbond.o mergepat.o fillasn.o escape.o p_jrnl.o p_rem.o p_atom.o p_helix.o p_sheet.o p_turn.o p_ssbond.o p_expdta.o p_model.o p_compnd.o report.o nsc.o area.o ssbond.o chk_res.o chk_atom.o turn.o pdbasn.o dssp.o outseq.o chkchain.o elem.o measure.o asngener.o p_endmdl.o stred.o  -lm  -o  stride
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/lib/stride' ããåºã¾ã
>===>  Staging for vmd-1.9.1_3
>===>   vmd-1.9.1_3 depends on file: /usr/local/lib/python2.7/site-packages/Numeric/Numeric.py - found
>===>   vmd-1.9.1_3 depends on file: /usr/local/bin/python2.7 - found
>===>   vmd-1.9.1_3 depends on executable: gcc48 - found
>===>   Generating temporary packing list
>/usr/bin/env XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work XDG_DATA_HOME=/usr/ports/science/vmd/work  XDG_CONFIG_HOME=/usr/ports/science/vmd/work  HOME=/usr/ports/science/vmd/work NO_PIE=yes SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" PREFIX=/usr/local  LOCALBASE=/usr/local  LIBDIR="/usr/lib"  CC="gcc48" CFLAGS="-O2 -pipe  -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing"  CPP="cpp48" CPPFLAGS=""  LDFLAGS=" -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -L/usr/local/lib/gcc48" LIBS=""  CXX="g++48" CXXFLAGS="-O2 -pipe -fstack-protector -Wl,-rpath=/usr/local/lib/gcc48 -fno-strict-aliasing  -Wl,-rpath=/usr/local/lib/gcc48"  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -o root -g wheel -m 555"  BSD_INSTALL_LIB="install  -s -o root -g wheel -m 444"  BSD_INSTALL_SCRIPT="install  -o root -g wheel -m 555"  BSD_INSTALL_DATA="install  -o root -g wheel -m 0644"  BSD_INSTALL_MAN="install  -o root -g wheel -m 444" DESTDIR=/usr/ports/science/vmd/work/stage  gmake -C /usr/ports/science/vmd/work/vmd-1.9.1/src install
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/src' ã«å¥ãã¾ã
>if [ ! -d "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ]; then \
>	mkdir -p "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; \
>fi ; \
>if [ ! -d "/usr/ports/science/vmd/work/stage/usr/local/bin" ]; then \
>	mkdir -p "/usr/ports/science/vmd/work/stage/usr/local/bin" ; \
>fi ; \
>if [ ! -d "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"/doc ]; then \
>	mkdir -p "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"/doc; \
>fi
>cp ../Announcement  "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"
>cp ../README        "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"
>cp ../LICENSE       "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"
>cp ../doc/ug.pdf        "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"/doc
>if [ -f /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/vmd_FREEBSDAMD64 ]; then \
>           mv -f "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/vmd_FREEBSDAMD64" "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/OLD_vmd_FREEBSDAMD64" ; rm -f "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd/OLD_vmd_FREEBSDAMD64" ; fi
>cp ../FREEBSDAMD64/vmd_FREEBSDAMD64 "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"
>if [ -d "../lib/redistrib/lib_FREEBSDAMD64" ]; then \
>	cd ../lib/redistrib/lib_FREEBSDAMD64; tar -cf - ./* | \
>	(cd "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; tar -xf -) \
>fi ;
>cp ../lib/stride/stride_FREEBSDAMD64 ../lib/surf/surf_FREEBSDAMD64 ../lib/tachyon/tachyon_FREEBSDAMD64 "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"
>cd ..; tar -cf - scripts | \
>(cd "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; tar -xf -)
>cd ../lib; tar -cf - scripts | \
>(cd "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; tar -xf -)
>cd ..; tar -cf - python | \
>(cd "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"/scripts ; tar -xf -)
>cd ..; tar -cf - plugins | \
>(cd "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; tar -xf -)
>cd ..; tar -cf - shaders | \
>(cd "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd" ; tar -xf -)
>cp ../data/.vmdrc ../data/.vmdsensors ../data/vmd_completion.dat "/usr/ports/science/vmd/work/stage/usr/local/lib/vmd"
>cd ../bin ; \
>if [ -f run_vmd_tmp ]; then rm -f run_vmd_tmp; fi ; \
>if [ ! -x "/bin/csh" ]; then \
>	echo "Info: /bin/csh shell not found, installing Bourne shell startup script instead" ; \
>	echo '#!/bin/sh' >> run_vmd_tmp ; \
>	echo 'defaultvmddir="/usr/local/lib/vmd"' >> run_vmd_tmp ; \
>	echo 'vmdbasename=vmd' >> run_vmd_tmp ; \
>	cat vmd.sh >> run_vmd_tmp ; \
>else \
>	echo '#!/bin/csh' >> run_vmd_tmp ; \
>	echo 'set defaultvmddir="/usr/local/lib/vmd"' >> run_vmd_tmp ; \
>	echo 'set vmdbasename=vmd' >> run_vmd_tmp ; \
>	cat vmd.csh >> run_vmd_tmp ; \
>fi ; \
>chmod +x run_vmd_tmp ; \
>cp run_vmd_tmp "/usr/ports/science/vmd/work/stage/usr/local/bin"/vmd ; \
>rm -f run_vmd_tmp
>echo Make sure "/usr/local/bin"/vmd is in your path.
>Make sure /usr/local/bin/vmd is in your path.
>echo "VMD installation complete.  Enjoy!"
>VMD installation complete.  Enjoy!
>gmake[1]: ãã£ã¬ã¯ããª '/usr/ports/science/vmd/work/vmd-1.9.1/src' ããåºã¾ã
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/*FREEBSDAMD64  /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/molfile/*.so
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/autopsf1.3/psfcheck.so
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/hesstrans1.0/hesstrans.so
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/mutator1.4/libalchemify.so
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/pmepot1.0/libpmepot.so
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/psfgen1.6/libpsfgen.so
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/rnaview1.1/rnaview
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/signalproc1.1/specden.so
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/signalproc1.1/fftcmds.so
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/signalproc1.1/sgsmooth.so
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/volutil1.3/volutil
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/clustalw1.1/clustalw
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/tcl_libbiokit.so
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/q
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/seqqr
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/structqr
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/qpair
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/rmsd
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/libbiokit1.1/percid
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/phylotree1.2/upgmaclu
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/tcl/stamp1.2/stamp
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/bin/catdcd4.0/catdcd
>/usr/bin/strip /usr/ports/science/vmd/work/stage/usr/local/lib/vmd/plugins/FREEBSDAMD64/bin/cionize1.0/cionize
>====> Compressing man pages (compress-man)
>====> Checking for pkg-plist issues (check-plist)
>===> Parsing plist
>===> Checking for items in STAGEDIR missing from pkg-plist
>===> Checking for items in pkg-plist which are not in STAGEDIR
>===> No pkg-plist issues found (check-plist)
>====> Running Q/A tests (stage-qa)
>===>  Building package for vmd-1.9.1_3
>root@tmpjail:/usr/ports/science/vmd # ^Dexit
>
>Script done on Tue Jan 27 21:53:26 2015

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Attachments on bug 197103: 152189 | 152281 | 153570