From owner-freebsd-ports-bugs@FreeBSD.ORG Fri May 6 01:20:02 2005 Return-Path: Delivered-To: freebsd-ports-bugs@hub.freebsd.org Received: from mx1.FreeBSD.org (mx1.freebsd.org [216.136.204.125]) by hub.freebsd.org (Postfix) with ESMTP id 9293E16A4CF for ; Fri, 6 May 2005 01:20:02 +0000 (GMT) Received: from freefall.freebsd.org (freefall.freebsd.org [216.136.204.21]) by mx1.FreeBSD.org (Postfix) with ESMTP id 3AB8043D8F for ; Fri, 6 May 2005 01:20:02 +0000 (GMT) (envelope-from gnats@FreeBSD.org) Received: from freefall.freebsd.org (gnats@localhost [127.0.0.1]) by freefall.freebsd.org (8.13.3/8.13.3) with ESMTP id j461K2eb079481 for ; Fri, 6 May 2005 01:20:02 GMT (envelope-from gnats@freefall.freebsd.org) Received: (from gnats@localhost) by freefall.freebsd.org (8.13.3/8.13.1/Submit) id j461K29i079480; Fri, 6 May 2005 01:20:02 GMT (envelope-from gnats) Resent-Date: Fri, 6 May 2005 01:20:02 GMT Resent-Message-Id: <200505060120.j461K29i079480@freefall.freebsd.org> Resent-From: FreeBSD-gnats-submit@FreeBSD.org (GNATS Filer) Resent-To: freebsd-ports-bugs@FreeBSD.org Resent-Reply-To: FreeBSD-gnats-submit@FreeBSD.org, Sangwoo Shim Received: from mx1.FreeBSD.org (mx1.freebsd.org [216.136.204.125]) by hub.freebsd.org (Postfix) with ESMTP id 0689516A4CE for ; Fri, 6 May 2005 01:11:12 +0000 (GMT) Received: from www.freebsd.org (www.freebsd.org [216.136.204.117]) by mx1.FreeBSD.org (Postfix) with ESMTP id CE37843D91 for ; Fri, 6 May 2005 01:11:11 +0000 (GMT) (envelope-from nobody@FreeBSD.org) Received: from www.freebsd.org (localhost [127.0.0.1]) by www.freebsd.org (8.13.1/8.13.1) with ESMTP id j461B95G048295 for ; Fri, 6 May 2005 01:11:09 GMT (envelope-from nobody@www.freebsd.org) Received: (from nobody@localhost) by www.freebsd.org (8.13.1/8.13.1/Submit) id j461B9Ib048293; Fri, 6 May 2005 01:11:09 GMT (envelope-from nobody) Message-Id: <200505060111.j461B9Ib048293@www.freebsd.org> Date: Fri, 6 May 2005 01:11:09 GMT From: Sangwoo Shim To: freebsd-gnats-submit@FreeBSD.org X-Send-Pr-Version: www-2.3 Subject: ports/80682: science/vmd update to 1.8.3 X-BeenThere: freebsd-ports-bugs@freebsd.org X-Mailman-Version: 2.1.1 Precedence: list List-Id: Ports bug reports List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Fri, 06 May 2005 01:20:02 -0000 >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@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 @@ -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 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 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-lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/index.html -lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-2.3/tkcon.tcl -lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/pkgIndex.tcl -lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/tkcon-modified.tcl -lib/vmd/plugins/noarch/tcl/vmdtkcon1.0/vmdtkcon.tcl -lib/vmd/plugins/noarch/tcl/imdmenu1.0/pkgIndex.tcl -lib/vmd/plugins/noarch/tcl/imdmenu1.0/imdmenu.tcl -lib/vmd/plugins/noarch/tcl/pdbtool1.0/pkgIndex.tcl -lib/vmd/plugins/noarch/tcl/pdbtool1.0/pdbtool.tcl -lib/vmd/.vmdsensors -lib/vmd/.vmdrc -lib/vmd/scripts/tcl -lib/vmd/scripts/tcl8.0 -lib/vmd/scripts/tk -lib/vmd/scripts/tk8.0 +lib/vmd/scripts/tk8.4/dialog.tcl +lib/vmd/scripts/tk8.4/entry.tcl +lib/vmd/scripts/tk8.4/focus.tcl +lib/vmd/scripts/tk8.4/images/README +lib/vmd/scripts/tk8.4/images/logo.eps +lib/vmd/scripts/tk8.4/images/logo100.gif +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%% +@dirrm lib/vmd/shaders/CVS +@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 -@dirrm lib/vmd/plugins/noarch/tcl/vmdmovie1.1 +@dirrm lib/vmd/plugins/noarch/tcl/vmdmovie1.2 +@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 -@dirrm lib/vmd/plugins/noarch/tcl/namdrun0.1 +@dirrm lib/vmd/plugins/noarch/tcl/navigate1.0 @dirrm lib/vmd/plugins/noarch/tcl/membrane1.0 -@dirrm lib/vmd/plugins/noarch/tcl/jmvexport1.0 @dirrm lib/vmd/plugins/noarch/tcl/imdmenu1.0 -@dirrm lib/vmd/plugins/noarch/tcl/contactmap1.0 -@dirrm lib/vmd/plugins/noarch/tcl/autoionize1.0 -@dirrm lib/vmd/plugins/noarch/tcl/autoimd1.3 -@dirrm lib/vmd/plugins/noarch/tcl/aligntool1.0 +@dirrm lib/vmd/plugins/noarch/tcl/exectool1.0 +@dirrm lib/vmd/plugins/noarch/tcl/contactmap1.1 +@dirrm lib/vmd/plugins/noarch/tcl/cliptool1.0 +@dirrm lib/vmd/plugins/noarch/tcl/autoionize1.1 +@dirrm lib/vmd/plugins/noarch/tcl/autoimd1.4 +@dirrm lib/vmd/plugins/noarch/tcl/apbsrun1.0 @dirrm lib/vmd/plugins/noarch/tcl @dirrm lib/vmd/plugins/noarch @dirrm lib/vmd/plugins/include +@dirrm lib/vmd/plugins/%%VMD_ARCH%%/bin/catdcd4.0 +@dirrm lib/vmd/plugins/%%VMD_ARCH%%/bin @dirrm lib/vmd/plugins/%%VMD_ARCH%%/tcl/psfgen1.3 +@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: