Index: head/science/vmd/Makefile =================================================================== --- head/science/vmd/Makefile (revision 430879) +++ head/science/vmd/Makefile (revision 430880) @@ -1,140 +1,162 @@ # Created by: Stephen Montgomery-Smith # $FreeBSD$ PORTNAME= vmd -DISTVERSION= 1.9.1 -PORTREVISION= 5 +DISTVERSION= 1.9.3 CATEGORIES= science graphics python tcl tk -MASTER_SITES= http://jedi.ks.uiuc.edu/~johns/raytracer/files/0.99b2/:tachyon \ - http://www.photonlimited.com/~johns/tachyon/files/0.99b2/:tachyon \ - http://www.ks.uiuc.edu/Research/vmd/extsrcs/:stride +MASTER_SITES= http://jedi.ks.uiuc.edu/~johns/raytracer/files/0.99b6/:tachyon \ + http://www.photonlimited.com/~johns/tachyon/files/0.99b6/:tachyon \ + http://webclu.bio.wzw.tum.de/stride/:stride \ + ftp://ftp.ebi.ac.uk/pub/software/unix/stride/src/:stride DISTFILES= ${VMD_DIST} \ ${TACHYON_DIST}:tachyon \ ${STRIDE_DIST}:stride -MAINTAINER= ports@FreeBSD.org +MAINTAINER= dbn@FreeBSD.org COMMENT= Molecular visualization program +LICENSE= VMD BSD3CLAUSE STRIDE +LICENSE_COMB= multi + BUILD_DEPENDS= makedepend:devel/makedepend \ ${PYNUMERIC} LIB_DEPENDS= libtcl85.so:lang/tcl85 \ libtk85.so:x11-toolkits/tk85 \ libfltk.so:x11-toolkits/fltk \ libnetcdf.so:science/netcdf RUN_DEPENDS= ${PYNUMERIC} +LICENSE_FILE_VMD= ${WRKSRC}/LICENSE +LICENSE_PERMS_VMD= auto-accept +LICENSE_NAME_VMD= Visaul Molecular Dynamics Software License Agreement +LICENSE_DISTFILES_VMD= ${VMD_DIST} + +LICENSE_FILE_BSD3CLAUSE= ${WRKSRC}/lib/tachyon/Copyright +LICENSE_DISTFILES_BSD3CLAUSE= ${TACHYON_DIST} + +LICENSE_TEXT_STRIDE= ${FILESDIR}/stride.txt +LICENSE_PERMS_STRIDE= dist-mirror pkg-mirror auto-accept +LICENSE_NAME_STRIDE= Stride Copyright Notice +LICENSE_DISTFILES_STRIDE=${STRIDE_DIST} + USES= gmake perl5 python + USE_PERL5= build -USE_GL= glu -USE_GCC= any +USE_GL= gl glu +USE_XORG= x11 ONLY_FOR_ARCHS= i386 amd64 -RESTRICTED= License has restrictions +CONFIGURE_ENV= PYTHON_INCLUDE_DIR=${PYTHON_INCLUDEDIR} \ + PYTHON_LIBRARY_DIR=${PYTHON_LIBDIR} \ + NUMPY_INCLUDE_DIR=${PYTHON_SITELIBDIR}/numpy/core/include \ + NUMPY_LIBRARY_DIR=${PYTHON_SITELIBDIR} +INSTALL_WRKSRC= ${WRKSRC}/src VMD_DIST= ${PORTNAME}-${DISTVERSION}.src.tar.gz -TACHYON_DIST= tachyon-0.99b2.tar.gz -STRIDE_DIST= Stride_src.tar.Z +TACHYON_DIST= tachyon-0.99b6.tar.gz +STRIDE_DIST= stride.tar.gz +STRIDE_DOC= stride.doc .include .if ${ARCH} == "amd64" VMD_ARCH= FREEBSDAMD64 VMD_TARGET= freebsd.amd64.opengl .else VMD_ARCH= FREEBSD VMD_TARGET= freebsd.opengl .endif PLIST_SUB+= VMD_ARCH=${VMD_ARCH} # Check for VMD sources .if !exists(${DISTDIR}/${VMD_DIST}) IGNORE= license restrictions require manual fetching of the distribution\ source. Please visit http://www.ks.uiuc.edu/Development/Download/download.cgi?PackageName=VMD\ with a browser. You will be required to register, log in, and accept\ the University of Illinois agreement before you can download the\ ${VMD_DIST} source file. Place this file in ${DISTDIR} and try again. .endif do-extract: - ${MKDIR} ${WRKDIR} + ${MKDIR} ${WRKDIR} ${WRKSRC}/lib/stride ${TAR} -xzf ${DISTDIR}/${VMD_DIST} -C ${WRKDIR} ${TAR} -xzf ${WRKSRC}/lib/surf/surf.tar.Z -C ${WRKSRC}/lib/surf ${TAR} -xzf ${DISTDIR}/${TACHYON_DIST} -C ${WRKSRC}/lib ${TAR} -xzf ${DISTDIR}/${STRIDE_DIST} -C ${WRKSRC}/lib/stride post-patch: ${REINPLACE_CMD} \ -e "s|-ltk8.5|-ltk85|" \ -e "s|-ltcl8.5|-ltcl85|" \ - -e "s%\$$python_dir/lib_\$$config_arch%${PREFIX}%" \ - -e "s|python2.5|${PYTHON_VERSION}|" \ + -e "s|-lpython2.5|-l${PYTHON_VERSION}${PYTHON_ABIVER}|" \ -e "s|%%PREFIX%%|${PREFIX}|g" \ -e "s|/usr/local|${LOCALBASE}|g" \ + -e "s|-fno-for-scope||g" \ ${WRKSRC}/configure ${REINPLACE_CMD} "s/\"gcc\"/\"${CC}\"/;s/\"g++\"/\"${CXX}\"/" \ ${WRKSRC}/configure ${REINPLACE_CMD} -e "s/.SILENT:/#.SILENT:/" ${WRKDIR}/plugins/Makefile ${REINPLACE_CMD} "s/.SILENT:/#.SILENT:/" ${WRKDIR}/plugins/*/Makefile ${REINPLACE_CMD} "s%log2f(\([^ ,]*\))%logf(\1)/(float)M_LN2%g" \ ${WRKSRC}/src/Orbital.C ${REINPLACE_CMD} -E "s/(SHLD[[:space:]]*=[[:space:]]*)gcc/\1${CC}/" \ ${WRKDIR}/plugins/Make-arch ${REINPLACE_CMD} -E "s/(CC[[:space:]]*=[[:space:]]*)(gcc|cc)/\1${CC}/" \ ${WRKSRC}/lib/stride/Makefile \ ${WRKSRC}/lib/surf/Makefile \ ${WRKSRC}/lib/tachyon/unix/Make-arch \ - ${WRKDIR}/plugins/cionize/mcudahacks/Makefile.specialbuilds \ ${WRKDIR}/plugins/cionize/Makefile.specialbuilds \ ${WRKDIR}/plugins/cionize/Makefile.mine \ ${WRKDIR}/plugins/cionize/Makefile.testing \ ${WRKDIR}/plugins/Make-arch \ ${WRKDIR}/plugins/molfile_plugin/f77/Makefile ${REINPLACE_CMD} -E "s/(CXX[[:space:]]*=[[:space:]]*)g\+\+/\1${CXX}/" \ - ${WRKDIR}/plugins/cionize/Makefile.specialbuilds \ ${WRKDIR}/plugins/fmtool/Makefile.specialbuilds \ ${WRKDIR}/plugins/hesstrans/src/foo/Makefile \ ${WRKDIR}/plugins/hesstrans/src/foo/nm_gnu.mak \ ${WRKDIR}/plugins/Make-arch + ${REINPLACE_CMD} -e "s/return *;/return 0;/g" \ + ${WRKSRC}/lib/surf/*.c do-build: ${SETENV} ${MAKE_ENV} ${MAKE_CMD} bsd -C ${WRKSRC}/lib/tachyon/unix \ && ${MV} ${WRKSRC}/lib/tachyon/compile/bsd/tachyon \ ${WRKSRC}/lib/tachyon/tachyon_${VMD_ARCH} ${SETENV} ${MAKE_ENV} TCLLIB=-L${PREFIX}/lib/tcl8.5 \ TCLINC=-I${PREFIX}/include/tcl8.5 PLUGINDIR=${WRKSRC}/plugins \ ${MAKE_CMD} ${VMD_ARCH} distrib -C ${WRKDIR}/plugins ${SETENV} ${MAKE_ENV} TCL_INCLUDE_DIR=${PREFIX}/include/tcl8.5 \ TK_INCLUDE_DIR=${PREFIX}/include/tk8.5 ${MAKE_CMD} \ ${VMD_TARGET} -C ${WRKSRC} ${SETENV} ${MAKE_ENV} ${MAKE_CMD} all -C ${WRKSRC}/src ${SETENV} ${MAKE_ENV} ${MAKE_CMD} depend -C ${WRKSRC}/lib/surf \ && ${SETENV} ${MAKE_ENV} ${MAKE_CMD} surf -C \ ${WRKSRC}/lib/surf \ && ${MV} ${WRKSRC}/lib/surf/surf \ ${WRKSRC}/lib/surf/surf_${VMD_ARCH} ${SETENV} ${MAKE_ENV} ${MAKE_CMD} -C ${WRKSRC}/lib/stride \ && ${MV} ${WRKSRC}/lib/stride/stride \ ${WRKSRC}/lib/stride/stride_${VMD_ARCH} -do-install: - ${SETENV} ${MAKE_ENV} DESTDIR=${STAGEDIR} \ - ${MAKE_CMD} -C ${WRKSRC}/src install +post-install: + ${REINPLACE_CMD} -i '' -e 's|${STAGEDIR}||g' ${STAGEDIR}${PREFIX}/bin/vmd ${STRIP_CMD} ${STAGEDIR}${LOCALBASE}/lib/vmd/*${VMD_ARCH} \ ${STAGEDIR}${LOCALBASE}/lib/vmd/plugins/${VMD_ARCH}/molfile/*.so -.for f in tcl/autopsf1.3/psfcheck.so tcl/hesstrans1.0/hesstrans.so \ - tcl/mutator1.4/libalchemify.so tcl/pmepot1.0/libpmepot.so \ +.for f in tcl/autopsf1.6/psfcheck.so tcl/hesstrans1.0/hesstrans.so \ + tcl/mutator1.5/libalchemify.so tcl/pmepot1.0/libpmepot.so \ tcl/psfgen1.6/libpsfgen.so tcl/rnaview1.1/rnaview \ tcl/signalproc1.1/specden.so tcl/signalproc1.1/fftcmds.so \ tcl/signalproc1.1/sgsmooth.so tcl/volutil1.3/volutil \ tcl/clustalw1.1/clustalw tcl/libbiokit1.1/tcl_libbiokit.so \ tcl/libbiokit1.1/q tcl/libbiokit1.1/seqqr \ tcl/libbiokit1.1/structqr tcl/libbiokit1.1/qpair \ tcl/libbiokit1.1/rmsd tcl/libbiokit1.1/percid \ tcl/phylotree1.2/upgmaclu tcl/stamp1.2/stamp \ - bin/catdcd4.0/catdcd bin/cionize1.0/cionize + tcl/bossconvert1.0/Topology \ + bin/catdcd5.1/catdcd bin/cionize1.0/cionize ${STRIP_CMD} ${STAGEDIR}${LOCALBASE}/lib/vmd/plugins/${VMD_ARCH}/${f} .endfor .include Index: head/science/vmd/distinfo =================================================================== --- head/science/vmd/distinfo (revision 430879) +++ head/science/vmd/distinfo (revision 430880) @@ -1,6 +1,7 @@ -SHA256 (vmd-1.9.1.src.tar.gz) = 54aa88e03d86d763383e7b98592a152c9d68e78383e13af0dd2aca09b002491f -SIZE (vmd-1.9.1.src.tar.gz) = 30748110 -SHA256 (tachyon-0.99b2.tar.gz) = 3bd8dd6ad78c6b2153e985645b385357eb42f3908a2269a7cfe7f9afa35da012 -SIZE (tachyon-0.99b2.tar.gz) = 3352908 -SHA256 (Stride_src.tar.Z) = c40f7de64947ebab7ec49511c0d264b08bc0fcbc703014bdc85d83a7389be230 -SIZE (Stride_src.tar.Z) = 100329 +TIMESTAMP = 1482469862 +SHA256 (vmd-1.9.3.src.tar.gz) = 5bdc314dc836d620fe510ed4b6c3dbe3cf66525b61680ffec4e2563cf495f128 +SIZE (vmd-1.9.3.src.tar.gz) = 43981314 +SHA256 (tachyon-0.99b6.tar.gz) = f4dcaf9c76a4f49310f56254390f9611c22e353947a1745a8c623e8bc8119b97 +SIZE (tachyon-0.99b6.tar.gz) = 2981568 +SHA256 (stride.tar.gz) = 51a8bc2988bb184bd08216124f61725225bb1a6f563bdf8cd35154cb5d621c1a +SIZE (stride.tar.gz) = 318997 Index: head/science/vmd/files/patch-configure =================================================================== --- head/science/vmd/files/patch-configure (revision 430879) +++ head/science/vmd/files/patch-configure (revision 430880) @@ -1,108 +1,39 @@ ---- configure.orig 2012-02-02 16:53:54.000000000 +0900 -+++ configure 2014-08-28 16:42:38.000000000 +0900 +--- configure.orig 2016-12-01 07:11:33 UTC ++++ configure @@ -13,10 +13,10 @@ $install_name = "vmd"; # Directory where VMD startup script is installed, should be in users' paths. -$install_bin_dir="/usr/local/bin"; -+$install_bin_dir="%%PREFIX%%/bin"; ++$install_bin_dir="\${DESTDIR}%%PREFIX%%/bin"; # Directory where VMD files and executables are installed -$install_library_dir="/usr/local/lib/$install_name"; -+$install_library_dir="%%PREFIX%%/lib/$install_name"; ++$install_library_dir="\${DESTDIR}%%PREFIX%%/lib/$install_name"; # optionally override hard-coded defaults above with environment variables -@@ -788,8 +788,8 @@ +@@ -1105,8 +1105,8 @@ if ($config_liboptix) { # This may be commented out if not required. $libtachyon_defines = "-DVMDLIBTACHYON"; $libtachyon_dir = "$vmd_library_dir/tachyon"; -$libtachyon_include = "-I$libtachyon_dir/include"; -$libtachyon_library = "-L$libtachyon_dir/lib_$config_arch"; +$libtachyon_include = "-I$libtachyon_dir/src"; +$libtachyon_library = "-L$libtachyon_dir/compile/bsd"; $libtachyon_libs = "-ltachyon"; @libtachyon_cc = (); @libtachyon_cu = (); -@@ -2942,10 +2942,10 @@ +@@ -3187,10 +3187,10 @@ DEFINES = $DEFINES # compiler and compiler directives CC = $arch_cc -CFLAGS = $arch_copts -DARCH_$config_arch \$(DEFINES) \$(INCDIRS) $rpm_optflags -+CFLAGS += $arch_copts -DARCH_$config_arch \$(DEFINES) \$(INCDIRS) ++CFLAGS = $arch_copts -DARCH_$config_arch \$(DEFINES) \$(INCDIRS) CCPP = $arch_ccpp -CPPFLAGS = $arch_opt_flag $arch_cppopts -DARCH_$config_arch \$(DEFINES) \$(INCDIRS) $rpm_optflags +CPPFLAGS = \${CXXFLAGS} $arch_opt_flag $arch_cppopts -DARCH_$config_arch \$(DEFINES) \$(INCDIRS) NVCC = $arch_nvcc NVCCFLAGS = $arch_nvccflags -DARCH_$config_arch \$(DEFINES) \$(INCDIRS) -@@ -2997,38 +2997,38 @@ - \$(COMPILERC) \$(RCFLAGS) - - install: -- if [ ! -d "$install_library_dir" ]; then \\ -- \$(MAKEDIR) "$install_library_dir" ; \\ -+ if [ ! -d "\${DESTDIR}$install_library_dir" ]; then \\ -+ \$(MAKEDIR) "\${DESTDIR}$install_library_dir" ; \\ - fi ; \\ -- if [ ! -d "$install_bin_dir" ]; then \\ -- \$(MAKEDIR) "$install_bin_dir" ; \\ -+ if [ ! -d "\${DESTDIR}$install_bin_dir" ]; then \\ -+ \$(MAKEDIR) "\${DESTDIR}$install_bin_dir" ; \\ - fi ; \\ -- if [ ! -d "$install_library_dir"/doc ]; then \\ -- \$(MAKEDIR) "$install_library_dir"/doc; \\ -+ if [ ! -d "\${DESTDIR}$install_library_dir"/doc ]; then \\ -+ \$(MAKEDIR) "\${DESTDIR}$install_library_dir"/doc; \\ - fi -- -\$(COPY) ../Announcement "$install_library_dir" -- -\$(COPY) ../README "$install_library_dir" -- -\$(COPY) ../LICENSE "$install_library_dir" -- -\$(COPY) $vmd_doc_dir/ug.pdf "$install_library_dir"/doc -- if [ -f $install_library_dir/$config_progname ]; then \\ -- \$(MOVE) "$install_library_dir/$config_progname" "$install_library_dir/OLD_$config_progname" ; \$(DELETE) "$install_library_dir/OLD_$config_progname" ; fi -- -\$(COPY) ../$config_arch/$config_progname "$install_library_dir" -+ -\$(COPY) ../Announcement "\${DESTDIR}$install_library_dir" -+ -\$(COPY) ../README "\${DESTDIR}$install_library_dir" -+ -\$(COPY) ../LICENSE "\${DESTDIR}$install_library_dir" -+ -\$(COPY) $vmd_doc_dir/ug.pdf "\${DESTDIR}$install_library_dir"/doc -+ if [ -f \${DESTDIR}$install_library_dir/$config_progname ]; then \\ -+ \$(MOVE) "\${DESTDIR}$install_library_dir/$config_progname" "\${DESTDIR}$install_library_dir/OLD_$config_progname" ; \$(DELETE) "\${DESTDIR}$install_library_dir/OLD_$config_progname" ; fi -+ -\$(COPY) ../$config_arch/$config_progname "\${DESTDIR}$install_library_dir" - if [ -d "../lib/redistrib/lib_$config_arch" ]; then \\ - \$(CD) ../lib/redistrib/lib_$config_arch; \$(TAR) -cf - ./* | \\ -- (cd "$install_library_dir" ; \$(TAR) -xf -) \\ -+ (cd "\${DESTDIR}$install_library_dir" ; \$(TAR) -xf -) \\ - fi ; -- -\$(COPY) @vmd_other_exe "$install_library_dir" -+ -\$(COPY) @vmd_other_exe "\${DESTDIR}$install_library_dir" - -\$(CD) ..; \$(TAR) -cf - scripts | \\ -- (cd "$install_library_dir" ; \$(TAR) -xf -) -+ (cd "\${DESTDIR}$install_library_dir" ; \$(TAR) -xf -) - -\$(CD) $vmd_library_dir; \$(TAR) -cf - scripts | \\ -- (cd "$install_library_dir" ; \$(TAR) -xf -) -+ (cd "\${DESTDIR}$install_library_dir" ; \$(TAR) -xf -) - -\$(CD) ..; \$(TAR) -cf - python | \\ -- (cd "$install_library_dir"/scripts ; \$(TAR) -xf -) -+ (cd "\${DESTDIR}$install_library_dir"/scripts ; \$(TAR) -xf -) - -\$(CD) ..; \$(TAR) -cf - plugins | \\ -- (cd "$install_library_dir" ; \$(TAR) -xf -) -+ (cd "\${DESTDIR}$install_library_dir" ; \$(TAR) -xf -) - -\$(CD) ..; \$(TAR) -cf - shaders | \\ -- (cd "$install_library_dir" ; \$(TAR) -xf -) -- -\$(COPY) ../data/.vmdrc ../data/.vmdsensors ../data/vmd_completion.dat "$install_library_dir" -+ (cd "\${DESTDIR}$install_library_dir" ; \$(TAR) -xf -) -+ -\$(COPY) ../data/.vmdrc ../data/.vmdsensors ../data/vmd_completion.dat "\${DESTDIR}$install_library_dir" - \$(CD) $vmd_bin_dir ; \\ - if [ -f run_vmd_tmp ]; then \$(DELETE) run_vmd_tmp; fi ; \\ - if [ ! -x "/bin/csh" ]; then \\ -@@ -3044,7 +3044,7 @@ - cat $vmd_bin_csh >> run_vmd_tmp ; \\ - fi ; \\ - chmod +x run_vmd_tmp ; \\ -- \$(COPY) run_vmd_tmp "$install_bin_dir"/$install_name ; \\ -+ \$(COPY) run_vmd_tmp "\${DESTDIR}$install_bin_dir"/$install_name ; \\ - \$(DELETE) run_vmd_tmp - \$(ECHO) Make sure "$install_bin_dir"/$install_name is in your path. - \$(ECHO) "VMD installation complete. Enjoy!" Index: head/science/vmd/files/patch-lib_tachyon_unix_Make-arch =================================================================== --- head/science/vmd/files/patch-lib_tachyon_unix_Make-arch (revision 430879) +++ head/science/vmd/files/patch-lib_tachyon_unix_Make-arch (revision 430880) @@ -1,11 +1,11 @@ ---- Make-arch-orig Fri Mar 25 14:34:38 2005 -+++ lib/tachyon/unix/Make-arch Fri Mar 25 14:34:50 2005 -@@ -989,7 +989,7 @@ +--- lib/tachyon/unix/Make-arch.orig 2013-04-21 19:09:28 UTC ++++ lib/tachyon/unix/Make-arch +@@ -1103,7 +1103,7 @@ bsd: $(MAKE) all \ "ARCH = bsd" \ "CC = gcc" \ - "CFLAGS = -O3 -fomit-frame-pointer -ffast-math -DBsd $(MISCFLAGS)" \ + "CFLAGS += -O3 -fomit-frame-pointer -ffast-math -DBsd $(MISCFLAGS)" \ "AR = ar" \ "ARFLAGS = r" \ "STRIP = strip" \ Index: head/science/vmd/pkg-plist =================================================================== --- head/science/vmd/pkg-plist (revision 430879) +++ head/science/vmd/pkg-plist (revision 430880) @@ -1,1184 +1,1322 @@ bin/vmd lib/vmd/.vmdrc lib/vmd/.vmdsensors lib/vmd/Announcement lib/vmd/LICENSE lib/vmd/README lib/vmd/doc/ug.pdf -lib/vmd/plugins/%%VMD_ARCH%%/bin/catdcd4.0/catdcd +lib/vmd/plugins/%%VMD_ARCH%%/bin/catdcd5.1/catdcd lib/vmd/plugins/%%VMD_ARCH%%/bin/cionize1.0/cionize lib/vmd/plugins/%%VMD_ARCH%%/molfile/abinitplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/avsplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/babelplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/basissetplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/bgfplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/binposplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/biomoccaplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/brixplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/carplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/ccp4plugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/corplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/cpmdplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/crdplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/cubeplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/dcdplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/dlpolyplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/dsn6plugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/dtrplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/dxplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/edmplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/fs4plugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/gamessplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/graspplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/grdplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/gridplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/gromacsplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/jsplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/lammpsplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/libmolfile_plugin.a lib/vmd/plugins/%%VMD_ARCH%%/molfile/libmolfile_plugin.h lib/vmd/plugins/%%VMD_ARCH%%/molfile/maeffplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/mapplugin.so lib/vmd/plugins/%%VMD_ARCH%%/molfile/mdfplugin.so 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