ports/80682: science/vmd update to 1.8.3
Sangwoo Shim
ssw at neo.redjade.org
Fri May 6 01:20:02 UTC 2005
>Number: 80682
>Category: ports
>Synopsis: science/vmd update to 1.8.3
>Confidential: no
>Severity: non-critical
>Priority: medium
>Responsible: freebsd-ports-bugs
>State: open
>Quarter:
>Keywords:
>Date-Required:
>Class: update
>Submitter-Id: current-users
>Arrival-Date: Fri May 06 01:20:01 GMT 2005
>Closed-Date:
>Last-Modified:
>Originator: Sangwoo Shim
>Release: 6-CURRENT (of Apr 26)
>Organization:
Seoul Natl' Univ.
>Environment:
FreeBSD swoo.org 6.0-CURRENT FreeBSD 6.0-CURRENT #0: Tue Apr 26 01:02:04 KST 2005 root at swoo.org:/usr/obj/usr/src/sys/SWOO amd64
>Description:
I've updated vmd to 1.8.3. This patch should applied to the current vmd port tree. This version honors CFLAGS, too. (thanks to the Stephan Montgomery-Smith!)
%%%
diff -urN vmd.orig/Makefile vmd/Makefile
--- vmd.orig/Makefile Fri May 6 09:58:57 2005
+++ vmd/Makefile Mon Mar 28 11:00:33 2005
@@ -6,10 +6,10 @@
#
PORTNAME= vmd
-PORTVERSION= 1.8.2
-PORTREVISION= 2
+PORTVERSION= 1.8.3
+PORTREVISION= 0
CATEGORIES= science graphics python tcl84 tk84
-MASTER_SITES= http://jedi.ks.uiuc.edu/~johns/raytracer/files/0.96/ \
+MASTER_SITES= http://jedi.ks.uiuc.edu/~johns/raytracer/files/0.97/ \
ftp://ftp.ebi.ac.uk/pub/software/unix/stride/src/
DISTFILES= ${VMD_DIST} ${TACHYON_DIST} ${STRIDE_DIST}
@@ -33,7 +33,7 @@
RESTRICTED= "License has restrictions"
VMD_DIST= ${PORTNAME}-${PORTVERSION}.src.tar.gz
-TACHYON_DIST= tachyon-0.96.tar.gz
+TACHYON_DIST= tachyon-0.97.tar.gz
STRIDE_DIST= stride.tar.gz
.include <bsd.port.pre.mk>
@@ -63,10 +63,10 @@
do-extract:
${MKDIR} ${WRKDIR}
- cd ${WRKDIR} && ${TAR} xfz ${DISTDIR}/${VMD_DIST}
- cd ${WRKSRC}/lib/surf && ${TAR} xfz surf.tar.Z
- cd ${WRKSRC}/lib && ${TAR} xfz ${DISTDIR}/${TACHYON_DIST}
- cd ${WRKSRC}/lib/stride && ${TAR} xfz ${DISTDIR}/${STRIDE_DIST}
+ ${TAR} xfz ${DISTDIR}/${VMD_DIST} -C ${WRKDIR}
+ ${TAR} xfz ${WRKSRC}/lib/surf/surf.tar.Z -C ${WRKSRC}/lib/surf
+ ${TAR} xfz ${DISTDIR}/${TACHYON_DIST} -C ${WRKSRC}/lib
+ ${TAR} xfz ${DISTDIR}/${STRIDE_DIST} -C ${WRKSRC}/lib/stride
post-patch:
${REINPLACE_CMD} "s/-lpthread/${PTHREAD_LIBS}/" ${WRKSRC}/configure
@@ -74,17 +74,19 @@
${REINPLACE_CMD} "s/-ltcl8.4/-ltcl84/" ${WRKSRC}/configure
${REINPLACE_CMD} "s%\$$python_dir/lib_\$$config_arch%${PREFIX}%" ${WRKSRC}/configure
${REINPLACE_CMD} "s/python2.2/${PYTHON_VERSION}/" ${WRKSRC}/configure
+ ${REINPLACE_CMD} "s/.SILENT:/#.SILENT:/" ${WRKDIR}/plugins/Makefile
+ ${REINPLACE_CMD} "s/.SILENT:/#.SILENT:/" ${WRKDIR}/plugins/*/Makefile
do-build:
- cd ${WRKSRC}/lib/tachyon/unix && ${SETENV} ${MAKE_ENV} ${GMAKE} bsd && ${MV} ../compile/bsd/tachyon ../tachyon_${VMD_ARCH}
- cd ${WRKDIR}/plugins && ${SETENV} ${MAKE_ENV} PLUGINDIR=${WRKSRC}/plugins ${GMAKE} ${VMD_ARCH} distrib
- cd ${WRKSRC} && ${SETENV} ${MAKE_ENV} TCL_INCLUDE_DIR=${PREFIX}/include/tcl8.4 TK_INCLUDE_DIR=${PREFIX}/include/tk8.4 ${GMAKE} ${VMD_TARGET}
- cd ${WRKSRC}/src && ${SETENV} ${MAKE_ENV} ${GMAKE} all
- cd ${WRKSRC}/lib/surf && ${SETENV} ${MAKE_ENV} ${GMAKE} depend && ${SETENV} ${MAKE_ENV} ${GMAKE} surf && ${MV} surf surf_${VMD_ARCH}
- cd ${WRKSRC}/lib/stride && ${SETENV} ${MAKE_ENV} ${GMAKE} && ${MV} stride stride_${VMD_ARCH}
+ ${SETENV} ${MAKE_ENV} ${GMAKE} bsd -C ${WRKSRC}/lib/tachyon/unix && ${MV} ${WRKSRC}/lib/tachyon/compile/bsd/tachyon ${WRKSRC}/lib/tachyon/tachyon_${VMD_ARCH}
+
+ ${SETENV} ${MAKE_ENV} PLUGINDIR=${WRKSRC}/plugins ${GMAKE} ${VMD_ARCH} distrib -C ${WRKDIR}/plugins
+ ${SETENV} ${MAKE_ENV} TCL_INCLUDE_DIR=${PREFIX}/include/tcl8.4 TK_INCLUDE_DIR=${PREFIX}/include/tk8.4 ${GMAKE} ${VMD_TARGET} -C ${WRKSRC}
+ ${SETENV} ${MAKE_ENV} ${GMAKE} all -C ${WRKSRC}/src
+ ${SETENV} ${MAKE_ENV} ${GMAKE} depend -C ${WRKSRC}/lib/surf && ${SETENV} ${MAKE_ENV} ${GMAKE} surf -C ${WRKSRC}/lib/surf && ${MV} ${WRKSRC}/lib/surf/surf ${WRKSRC}/lib/surf/surf_${VMD_ARCH}
+ ${SETENV} ${MAKE_ENV} ${GMAKE} -C ${WRKSRC}/lib/stride && ${MV} ${WRKSRC}/lib/stride/stride ${WRKSRC}/lib/stride/stride_${VMD_ARCH}
do-install:
- cd ${WRKSRC}/src && ${SETENV} ${MAKE_ENV} ${GMAKE} install
-# cd ${WRKSRC}/lib/surf && ${INSTALL_PROGRAM} surf_${VMD_ARCH} ${PREFIX}/lib/vmd
+ ${SETENV} ${MAKE_ENV} ${GMAKE} -C ${WRKSRC}/src install
.include <bsd.port.post.mk>
diff -urN vmd.orig/distinfo vmd/distinfo
--- vmd.orig/distinfo Fri May 6 09:58:57 2005
+++ vmd/distinfo Mon Mar 21 17:58:05 2005
@@ -1,6 +1,6 @@
-MD5 (vmd-1.8.2.src.tar.gz) = 8ad9cb90d954740f3b54be585526698d
-SIZE (vmd-1.8.2.src.tar.gz) = 7192878
-MD5 (tachyon-0.96.tar.gz) = db695196231a304b8102c1d6a0f6f6f2
-SIZE (tachyon-0.96.tar.gz) = 2419955
+MD5 (vmd-1.8.3.src.tar.gz) = 8fb3fa55a54bcc3e41dbbd53c1c2cc59
+SIZE (vmd-1.8.3.src.tar.gz) = 8590337
+MD5 (tachyon-0.97.tar.gz) = 198953aea283a7158eef2ee079e909f6
+SIZE (tachyon-0.97.tar.gz) = 2485223
MD5 (stride.tar.gz) = bdef3a3e1af8cbdf8fbfefacfa9a929f
SIZE (stride.tar.gz) = 56441
diff -urN vmd.orig/files/patch-Make-arch vmd/files/patch-Make-arch
--- vmd.orig/files/patch-Make-arch Fri May 6 09:58:57 2005
+++ vmd/files/patch-Make-arch Mon Mar 28 11:00:33 2005
@@ -1,5 +1,5 @@
---- ../plugins/Make-arch.orig Fri Nov 14 07:50:25 2003
-+++ ../plugins/Make-arch Fri Jan 21 19:30:53 2005
+--- Make-arch.orig Mon Feb 7 13:09:55 2005
++++ ../plugins/Make-arch Fri Mar 25 16:54:01 2005
@@ -9,6 +9,7 @@
@echo "--------------------------------------"
@echo " AIX4"
@@ -8,10 +8,14 @@
@echo " HPUX11"
@echo " IRIX6"
@echo " IRIX6_64"
-@@ -142,6 +143,20 @@
+@@ -142,8 +143,22 @@
+ "LOPTO = -o " \
+ "CC = gcc" \
"CXX = g++" \
- "CCFLAGS = -O2 -Wall -ansi -I/usr/local/include/tcl8.4" \
- "CXXFLAGS = -O2 -Wall" \
+- "CCFLAGS = -O2 -Wall -I/usr/local/include/tcl8.4" \
+- "CXXFLAGS = -O2 -Wall" \
++ "CCFLAGS = ${CFLAGS} -O2 -Wall -I/usr/local/include/tcl8.4" \
++ "CXXFLAGS = ${CFLAGS} -O2 -Wall" \
+ "TCLLDFLAGS = -L/usr/local/lib -ltcl84" \
+ "NM = nm -p" \
+ "RANLIB = touch" \
@@ -24,8 +28,8 @@
+ "LOPTO = -fPIC -m64 -o " \
+ "CC = gcc" \
+ "CXX = g++" \
-+ "CCFLAGS = -m64 -O2 -Wall -ansi -I/usr/local/include/tcl8.4" \
-+ "CXXFLAGS = -m64 -O2 -Wall" \
++ "CCFLAGS = ${CFLAGS} -m64 -O2 -Wall -I/usr/local/include/tcl8.4" \
++ "CXXFLAGS = ${CFLAGS} -m64 -O2 -Wall" \
"TCLLDFLAGS = -L/usr/local/lib -ltcl84" \
"NM = nm -p" \
"RANLIB = touch" \
diff -urN vmd.orig/files/patch-Makefile vmd/files/patch-Makefile
--- vmd.orig/files/patch-Makefile Fri May 6 09:58:57 2005
+++ vmd/files/patch-Makefile Mon Mar 28 11:00:33 2005
@@ -5,12 +5,12 @@
## FreeBSD builds
freebsd.mesa:
- ./configure FREEBSD MESA FLTK TK TCL IMD VRPN PYTHON PTHREADS LIBTACHYON NUMPY SILENT
-+ ./configure FREEBSD MESA FLTK TK TCL IMD PYTHON PTHREADS LIBTACHYON NUMPY SILENT
++ ./configure FREEBSD MESA FLTK TK TCL IMD PYTHON PTHREADS LIBTACHYON NUMPY
# FreeBSD doesn't have hardware good accelleration support
freebsd.opengl:
- ./configure FREEBSD OPENGL FLTK TK IMD VRPN SILENT SPACEBALL TCL PTHREADS ACTC LIBTACHYON PYTHON NUMPY
-+ ./configure FREEBSD OPENGL FLTK TK IMD SILENT TCL PTHREADS LIBTACHYON PYTHON NUMPY
++ ./configure FREEBSD OPENGL FLTK TK IMD TCL PTHREADS LIBTACHYON PYTHON NUMPY
+
+freebsd.amd64.opengl:
+ ./configure FREEBSDAMD64 OPENGL FLTK TK IMD SILENT TCL PTHREADS LIBTACHYON PYTHON NUMPY
diff -urN vmd.orig/files/patch-configure vmd/files/patch-configure
--- vmd.orig/files/patch-configure Fri May 6 09:58:57 2005
+++ vmd/files/patch-configure Mon Mar 28 11:00:33 2005
@@ -109,3 +109,17 @@
if ($config_python) {
# this is to make python happy
+@@ -2052,11 +2114,11 @@
+
+ # compiler and compiler directives
+ CC = $arch_cc
+-CFLAGS = $arch_copts -DARCH_$config_arch \$(DEFINES) \$(INCDIRS)
+ COMPILERC = $arch_compilerc
+ RCFLAGS = $arch_rcflags
+ CCPP = $arch_ccpp
+-CPPFLAGS = $arch_opt_flag $arch_cppopts -DARCH_$config_arch \$(DEFINES) \$(INCDIRS)
++CPPFLAGS = \${CXXFLAGS} $arch_opt_flag $arch_cppopts -DARCH_$config_arch \$(DEFINES) \$(INCDIRS)
++CFLAGS += $arch_copts -DARCH_$config_arch \$(DEFINES) \$(INCDIRS)
+
+ DEPEND = $arch_depend_flag
+ DEPENDFILE = Makedata.depend
diff -urN vmd.orig/files/patch-lib::tachyon::unix::Make-arch vmd/files/patch-lib::tachyon::unix::Make-arch
--- vmd.orig/files/patch-lib::tachyon::unix::Make-arch Thu Jan 1 09:00:00 1970
+++ vmd/files/patch-lib::tachyon::unix::Make-arch Mon Mar 28 11:00:33 2005
@@ -0,0 +1,11 @@
+--- Make-arch-orig Fri Mar 25 14:34:38 2005
++++ lib/tachyon/unix/Make-arch Fri Mar 25 14:34:50 2005
+@@ -859,7 +859,7 @@
+ $(MAKE) all \
+ "ARCH = bsd" \
+ "CC = gcc" \
+- "CFLAGS = -O6 -fomit-frame-pointer -ffast-math -DBsd $(MISCFLAGS)" \
++ "CFLAGS += -O6 -fomit-frame-pointer -ffast-math -DBsd $(MISCFLAGS)" \
+ "AR = ar" \
+ "ARFLAGS = r" \
+ "STRIP = strip" \
diff -urN vmd.orig/files/patch-stride::Makefile vmd/files/patch-stride::Makefile
--- vmd.orig/files/patch-stride::Makefile Thu Jan 1 09:00:00 1970
+++ vmd/files/patch-stride::Makefile Mon Mar 28 11:00:33 2005
@@ -0,0 +1,10 @@
+--- lib/stride/Makefile-orig Fri Mar 25 17:51:11 2005
++++ lib/stride/Makefile Fri Mar 25 17:49:22 2005
+@@ -1,6 +1,6 @@
+ #CC = gcc -O2 # ->> for DJGPP compiler under DOS and for SunOS; also suitable for other machines
+
+-CC = cc -O2
++CC = cc ${CFLAGS} -O2
+ FLAGS = -lm -o
+
+ SOURCE = stride.c splitstr.c rdpdb.c initchn.c geometry.c thr2one.c one2thr.c filename.c tolostr.c strutil.c place_h.c hbenergy.c memory.c helix.c sheet.c rdmap.c phipsi.c command.c molscr.c die.c hydrbond.c mergepat.c fillasn.c escape.c p_jrnl.c p_rem.c p_atom.c p_helix.c p_sheet.c p_turn.c p_ssbond.c p_expdta.c p_model.c p_compnd.c report.c nsc.c area.c ssbond.c chk_res.c chk_atom.c turn.c pdbasn.c dssp.c outseq.c chkchain.c elem.c measure.c asngener.c p_endmdl.c stred.c
diff -urN vmd.orig/files/patch-surf::Makefile vmd/files/patch-surf::Makefile
--- vmd.orig/files/patch-surf::Makefile Thu Jan 1 09:00:00 1970
+++ vmd/files/patch-surf::Makefile Mon Mar 28 11:00:33 2005
@@ -0,0 +1,11 @@
+--- lib/surf/Makefile.orig Fri Mar 25 17:52:40 2005
++++ lib/surf/Makefile Fri Mar 25 17:50:20 2005
+@@ -6,7 +6,7 @@
+ LINCLUDE = -lm
+ OPT_CFLAGS = -O2 $(FLAGS) $(INCLUDE)
+ #CFLAGS = -g $(FLAGS) $(INCLUDE)
+-CFLAGS = -O2 $(FLAGS) $(INCLUDE)
++CFLAGS += -O2 $(FLAGS) $(INCLUDE)
+
+ # These are the user object files in the application
+ SRCS = surf.c io.c compute.c dual.c utils.c lp.c chull.c tessel_cases.c \
diff -urN vmd.orig/pkg-plist vmd/pkg-plist
--- vmd.orig/pkg-plist Fri May 6 09:58:57 2005
+++ vmd/pkg-plist Mon Mar 28 11:00:33 2005
@@ -1,40 +1,164 @@
bin/vmd
-lib/vmd/doc/ug.pdf
lib/vmd/Announcement
-lib/vmd/README
lib/vmd/LICENSE
-lib/vmd/vmd_%%VMD_ARCH%%
-lib/vmd/surf_%%VMD_ARCH%%
-lib/vmd/stride_%%VMD_ARCH%%
-lib/vmd/tachyon_%%VMD_ARCH%%
-lib/vmd/scripts/CVS/Root
-lib/vmd/scripts/CVS/Repository
+lib/vmd/README
+lib/vmd/.vmdrc
+lib/vmd/.vmdsensors
+lib/vmd/doc/ug.pdf
+lib/vmd/plugins/%%VMD_ARCH%%/bin/catdcd4.0/catdcd
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/avsplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/babelplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/binposplugin.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/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/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/mapplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/mdfplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/mol2plugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/moldenplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/namdbinplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/parm7plugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/parmplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/pdbplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/phiplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/pltplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/pqrplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/psfplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/raster3dplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/rst7plugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/stlplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/tinkerplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/webpdbplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/xsfplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/molfile/xyzplugin.so
+lib/vmd/plugins/%%VMD_ARCH%%/tcl/pmepot1.0/libpmepot.so
+lib/vmd/plugins/%%VMD_ARCH%%/tcl/pmepot1.0/pkgIndex.tcl
+lib/vmd/plugins/%%VMD_ARCH%%/tcl/pmepot1.0/pmepot.tcl
+lib/vmd/plugins/%%VMD_ARCH%%/tcl/pmepot1.0/pmepot_gui.tcl
+lib/vmd/plugins/%%VMD_ARCH%%/tcl/psfgen1.3/libpsfgen.so
+lib/vmd/plugins/%%VMD_ARCH%%/tcl/psfgen1.3/pkgIndex.tcl
+lib/vmd/plugins/%%VMD_ARCH%%/tcl/psfgen1.3/ug.pdf
+lib/vmd/plugins/include/molfile_plugin.h
+lib/vmd/plugins/include/vmdplugin.h
+lib/vmd/plugins/noarch/tcl/apbsrun1.0/apbsrun.tcl
+lib/vmd/plugins/noarch/tcl/apbsrun1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/apbsrun1.0/radii.dat
+lib/vmd/plugins/noarch/tcl/autoimd1.4/autoimd-api.tcl
+lib/vmd/plugins/noarch/tcl/autoimd1.4/autoimd-gui.tcl
+lib/vmd/plugins/noarch/tcl/autoimd1.4/autoimd-settings.tcl
+lib/vmd/plugins/noarch/tcl/autoimd1.4/autoimd-template.namd
+lib/vmd/plugins/noarch/tcl/autoimd1.4/autoimd.tcl
+lib/vmd/plugins/noarch/tcl/autoimd1.4/namdrun.tcl
+lib/vmd/plugins/noarch/tcl/autoimd1.4/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/autoimd1.4/ug.pdf
+lib/vmd/plugins/noarch/tcl/autoionize1.1/autoionize.tcl
+lib/vmd/plugins/noarch/tcl/autoionize1.1/ions.top
+lib/vmd/plugins/noarch/tcl/autoionize1.1/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/cliptool1.0/cliptool.tcl
+lib/vmd/plugins/noarch/tcl/cliptool1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/contactmap1.1/contactmap.tcl
+lib/vmd/plugins/noarch/tcl/contactmap1.1/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/exectool1.0/exectool.tcl
+lib/vmd/plugins/noarch/tcl/exectool1.0/jobmanager.tcl
+lib/vmd/plugins/noarch/tcl/exectool1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/imdmenu1.0/imdmenu.tcl
+lib/vmd/plugins/noarch/tcl/imdmenu1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/membrane1.0/membrane.tcl
+lib/vmd/plugins/noarch/tcl/membrane1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/membrane1.0/popc_box.pdb
+lib/vmd/plugins/noarch/tcl/membrane1.0/popc_box.psf
+lib/vmd/plugins/noarch/tcl/membrane1.0/pope_box.pdb
+lib/vmd/plugins/noarch/tcl/membrane1.0/pope_box.psf
+lib/vmd/plugins/noarch/tcl/membrane1.0/top_all27_prot_lipid.inp
+lib/vmd/plugins/noarch/tcl/navigate1.0/navigate.tcl
+lib/vmd/plugins/noarch/tcl/navigate1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/pdbtool1.0/pdbtool.tcl
+lib/vmd/plugins/noarch/tcl/pdbtool1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/ramaplot1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/ramaplot1.0/ramaplot.tcl
+lib/vmd/plugins/noarch/tcl/rmsd1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/rmsd1.0/rmsd.tcl
+lib/vmd/plugins/noarch/tcl/solvate1.2/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/solvate1.2/solvate.tcl
+lib/vmd/plugins/noarch/tcl/solvate1.2/wat.pdb
+lib/vmd/plugins/noarch/tcl/solvate1.2/wat.psf
+lib/vmd/plugins/noarch/tcl/solvate1.2/wat.top
+lib/vmd/plugins/noarch/tcl/timeline1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/timeline1.0/timeline.tcl
+lib/vmd/plugins/noarch/tcl/viewmaster2.1/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/viewmaster2.1/viewmaster.tcl
+lib/vmd/plugins/noarch/tcl/vmdmovie1.2/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/vmdmovie1.2/vmdmovie.tcl
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/README
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/pkgIndex.tcl
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/CVS/Entries
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/CVS/Repository
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/CVS/Root
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/ChangeLog
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/README.txt
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/docs/CVS/Entries
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/docs/CVS/Repository
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/docs/CVS/Root
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/docs/bindings.html
+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/docs/changes.txt
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+lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/docs/dump.html
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+lib/vmd/scripts/tk8.4/images/logo64.gif
+lib/vmd/scripts/tk8.4/images/logoLarge.gif
+lib/vmd/scripts/tk8.4/images/logoMed.gif
+lib/vmd/scripts/tk8.4/images/pwrdLogo.eps
+lib/vmd/scripts/tk8.4/images/pwrdLogo100.gif
+lib/vmd/scripts/tk8.4/images/pwrdLogo150.gif
+lib/vmd/scripts/tk8.4/images/pwrdLogo175.gif
+lib/vmd/scripts/tk8.4/images/pwrdLogo200.gif
+lib/vmd/scripts/tk8.4/images/pwrdLogo75.gif
+lib/vmd/scripts/tk8.4/images/tai-ku.gif
+lib/vmd/scripts/tk8.4/listbox.tcl
+lib/vmd/scripts/tk8.4/menu.tcl
+lib/vmd/scripts/tk8.4/mkpsenc.tcl
+lib/vmd/scripts/tk8.4/msgbox.tcl
+lib/vmd/scripts/tk8.4/msgs/cs.msg
+lib/vmd/scripts/tk8.4/msgs/de.msg
+lib/vmd/scripts/tk8.4/msgs/el.msg
+lib/vmd/scripts/tk8.4/msgs/en.msg
+lib/vmd/scripts/tk8.4/msgs/en_gb.msg
+lib/vmd/scripts/tk8.4/msgs/es.msg
+lib/vmd/scripts/tk8.4/msgs/fr.msg
+lib/vmd/scripts/tk8.4/msgs/it.msg
+lib/vmd/scripts/tk8.4/msgs/nl.msg
+lib/vmd/scripts/tk8.4/msgs/ru.msg
+lib/vmd/scripts/tk8.4/obsolete.tcl
+lib/vmd/scripts/tk8.4/optMenu.tcl
+lib/vmd/scripts/tk8.4/palette.tcl
+lib/vmd/scripts/tk8.4/panedwindow.tcl
+lib/vmd/scripts/tk8.4/prolog.ps
+lib/vmd/scripts/tk8.4/safetk.tcl
+lib/vmd/scripts/tk8.4/scale.tcl
+lib/vmd/scripts/tk8.4/scrlbar.tcl
+lib/vmd/scripts/tk8.4/spinbox.tcl
+lib/vmd/scripts/tk8.4/tclIndex
+lib/vmd/scripts/tk8.4/tearoff.tcl
+lib/vmd/scripts/tk8.4/text.tcl
+lib/vmd/scripts/tk8.4/tk.tcl
+lib/vmd/scripts/tk8.4/tkAppInit.c
+lib/vmd/scripts/tk8.4/tkfbox.tcl
+lib/vmd/scripts/tk8.4/unsupported.tcl
+lib/vmd/scripts/tk8.4/xmfbox.tcl
+lib/vmd/scripts/vmd/CVS/Entries
+lib/vmd/scripts/vmd/CVS/Repository
+lib/vmd/scripts/vmd/CVS/Root
+lib/vmd/scripts/vmd/README.chemical2vmd
+lib/vmd/scripts/vmd/atomselect.tcl
+lib/vmd/scripts/vmd/atomselmacros.tcl
+lib/vmd/scripts/vmd/biocore.tcl
+lib/vmd/scripts/vmd/chemical2vmd
+lib/vmd/scripts/vmd/colordefs.dat
+lib/vmd/scripts/vmd/draw.tcl
+lib/vmd/scripts/vmd/graphlabels.tcl
+lib/vmd/scripts/vmd/hotkeys.tcl
+lib/vmd/scripts/vmd/logfile.tcl
+lib/vmd/scripts/vmd/openURL.tcl
+lib/vmd/scripts/vmd/restypes.dat
+lib/vmd/scripts/vmd/save_state.tcl
+lib/vmd/scripts/vmd/tclIndex
+lib/vmd/scripts/vmd/vectors.tcl
+lib/vmd/scripts/vmd/vmdinit.tcl
+lib/vmd/scripts/vmd/www.tcl
+lib/vmd/shaders/CVS/Entries
+lib/vmd/shaders/CVS/Repository
+lib/vmd/shaders/CVS/Root
+lib/vmd/shaders/vmd.frag
+lib/vmd/shaders/vmd.vert
+lib/vmd/shaders/vmdsphere.frag
+lib/vmd/shaders/vmdsphere.vert
+lib/vmd/stride_%%VMD_ARCH%%
+lib/vmd/surf_%%VMD_ARCH%%
+lib/vmd/tachyon_%%VMD_ARCH%%
+lib/vmd/vmd_%%VMD_ARCH%%
+ at dirrm lib/vmd/shaders/CVS
+ at dirrm lib/vmd/shaders
@dirrm lib/vmd/scripts/vmd/CVS
@dirrm lib/vmd/scripts/vmd
@dirrm lib/vmd/scripts/tk8.4/msgs
@@ -393,24 +429,29 @@
@dirrm lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/CVS
@dirrm lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3
@dirrm lib/vmd/plugins/noarch/tcl/vmdtkcon1.0
- at dirrm lib/vmd/plugins/noarch/tcl/vmdmovie1.1
+ at dirrm lib/vmd/plugins/noarch/tcl/vmdmovie1.2
+ at dirrm lib/vmd/plugins/noarch/tcl/viewmaster2.1
@dirrm lib/vmd/plugins/noarch/tcl/timeline1.0
@dirrm lib/vmd/plugins/noarch/tcl/solvate1.2
@dirrm lib/vmd/plugins/noarch/tcl/rmsd1.0
@dirrm lib/vmd/plugins/noarch/tcl/ramaplot1.0
@dirrm lib/vmd/plugins/noarch/tcl/pdbtool1.0
- at dirrm lib/vmd/plugins/noarch/tcl/namdrun0.1
+ at dirrm lib/vmd/plugins/noarch/tcl/navigate1.0
@dirrm lib/vmd/plugins/noarch/tcl/membrane1.0
- at dirrm lib/vmd/plugins/noarch/tcl/jmvexport1.0
@dirrm lib/vmd/plugins/noarch/tcl/imdmenu1.0
- at dirrm lib/vmd/plugins/noarch/tcl/contactmap1.0
- at dirrm lib/vmd/plugins/noarch/tcl/autoionize1.0
- at dirrm lib/vmd/plugins/noarch/tcl/autoimd1.3
- at dirrm lib/vmd/plugins/noarch/tcl/aligntool1.0
+ at dirrm lib/vmd/plugins/noarch/tcl/exectool1.0
+ at dirrm lib/vmd/plugins/noarch/tcl/contactmap1.1
+ at dirrm lib/vmd/plugins/noarch/tcl/cliptool1.0
+ at dirrm lib/vmd/plugins/noarch/tcl/autoionize1.1
+ at dirrm lib/vmd/plugins/noarch/tcl/autoimd1.4
+ at dirrm lib/vmd/plugins/noarch/tcl/apbsrun1.0
@dirrm lib/vmd/plugins/noarch/tcl
@dirrm lib/vmd/plugins/noarch
@dirrm lib/vmd/plugins/include
+ at dirrm lib/vmd/plugins/%%VMD_ARCH%%/bin/catdcd4.0
+ at dirrm lib/vmd/plugins/%%VMD_ARCH%%/bin
@dirrm lib/vmd/plugins/%%VMD_ARCH%%/tcl/psfgen1.3
+ at dirrm lib/vmd/plugins/%%VMD_ARCH%%/tcl/pmepot1.0
@dirrm lib/vmd/plugins/%%VMD_ARCH%%/tcl
@dirrm lib/vmd/plugins/%%VMD_ARCH%%/molfile
@dirrm lib/vmd/plugins/%%VMD_ARCH%%
%%%
>How-To-Repeat:
>Fix:
>Release-Note:
>Audit-Trail:
>Unformatted:
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