FreeBSD Bugzilla – Attachment 18645 Details for
Bug 33425
maintainer update: biology/tinker
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[patch]
file.diff
file.diff (text/plain), 15.39 KB, created by
glennpj
on 2002-01-01 04:40:00 UTC
(
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Description:
file.diff
Filename:
MIME Type:
Creator:
glennpj
Created:
2002-01-01 04:40:00 UTC
Size:
15.39 KB
patch
obsolete
>diff -ruN tinker.old/Makefile tinker/Makefile >--- tinker.old/Makefile Mon Dec 31 14:45:33 2001 >+++ tinker/Makefile Mon Dec 31 20:56:27 2001 >@@ -7,6 +7,7 @@ > > PORTNAME= tinker > PORTVERSION= 3.9 >+PORTREVISION= 1 > CATEGORIES= biology > MASTER_SITES= ftp://dasher.wustl.edu/pub/ > DISTNAME= ${PORTNAME} >@@ -28,7 +29,7 @@ > @${ECHO_MSG} If you get a CHECKSUM mismatch, try doing a \'make distclean\' first. > @${ECHO_MSG} "" > >-.if defined(WANT_VIEWER) >+.if defined(WITH_VIEWER) > .if ${XFREE86_VERSION} == 3 > BUILD_DEPENDS+= imake:${PORTSDIR}/devel/imake > .elif ${XFREE86_VERSION} == 4 >@@ -42,7 +43,7 @@ > pre-extract: > @${ECHO} "" > @${ECHO} If you would like to also build >- @${ECHO} the molecular viewer, define WANT_VIEWER. >+ @${ECHO} the molecular viewer, define WITH_VIEWER. > @${ECHO} "" > .endif > >@@ -114,7 +115,7 @@ > @${INSTALL_DATA} ${WRKDIR}/tinker/test/* ${PREFIX}/share/tinker/test > .endif > >-.if defined(WANT_VIEWER) >+.if defined(WITH_VIEWER) > @${MKDIR} ${PREFIX}/share/tinker/rasmol > @${INSTALL_PROGRAM} ${WRKDIR}/tinker/rasmol/tview-* ${PREFIX}/bin > @${INSTALL_SCRIPT} ${FILESDIR}/tview ${PREFIX}/bin >diff -ruN tinker.old/distinfo tinker/distinfo >--- tinker.old/distinfo Mon Dec 31 14:45:33 2001 >+++ tinker/distinfo Mon Dec 31 20:56:27 2001 >@@ -1 +1 @@ >-MD5 (tinker.tar.gz) = a48fc15fe668f8e41d0cc3316a582928 >+MD5 (tinker.tar.gz) = e6f34c61cc40f107fbbcf4b0c7dae5a5 >diff -ruN tinker.old/files/patch-aa tinker/files/patch-aa >--- tinker.old/files/patch-aa Mon Dec 31 14:45:33 2001 >+++ tinker/files/patch-aa Mon Dec 31 20:56:27 2001 >@@ -1,5 +1,5 @@ >---- ../make/Makefile.orig Sat Jul 21 10:04:48 2001 >-+++ ../make/Makefile Wed Sep 5 13:51:19 2001 >+--- ../make/Makefile.orig Tue Nov 13 10:16:27 2001 >++++ ../make/Makefile Mon Dec 31 15:33:40 2001 > @@ -9,8 +9,8 @@ > ## > ## 1. make all Build all the TINKER executables >@@ -68,7 +68,7 @@ > ################################################################# > ## Should not be Necessary to Change Things Below this Point ## > ################################################################# >-@@ -494,11 +512,13 @@ >+@@ -497,11 +515,13 @@ > xyzpdb.x \ > xyzsybyl.x > >@@ -84,7 +84,7 @@ > > all: ${EXEFILES} > >-@@ -509,57 +529,57 @@ >+@@ -512,58 +532,58 @@ > cat *.i *.f > tinker.txt > > rename: >@@ -104,6 +104,7 @@ > - mv minimize.x $(BINDIR)/minimize > - mv minirot.x $(BINDIR)/minirot > - mv minrigid.x $(BINDIR)/minrigid >+- mv monte.x $(BINDIR)/monte > - mv newton.x $(BINDIR)/newton > - mv newtrot.x $(BINDIR)/newtrot > - mv nucleic.x $(BINDIR)/nucleic >@@ -155,6 +156,7 @@ > + ${INSTALL_PROGRAM} minimize.x $(BINDIR)/minimize > + ${INSTALL_PROGRAM} minirot.x $(BINDIR)/minirot > + ${INSTALL_PROGRAM} minrigid.x $(BINDIR)/minrigid >++ ${INSTALL_PROGRAM} monte.x $(BINDIR)/monte > + ${INSTALL_PROGRAM} newton.x $(BINDIR)/newton > + ${INSTALL_PROGRAM} newtrot.x $(BINDIR)/newtrot > + ${INSTALL_PROGRAM} nucleic.x $(BINDIR)/nucleic >@@ -193,13 +195,3 @@ > > remove_links: > rm -f $(LINKDIR)/alchemy >-@@ -682,8 +702,8 @@ >- bspline.o \ >- calendar.o \ >- center.o \ >-- chkxyz.o \ >- cholesky.o \ >-+ chkxyz.o \ >- clock.o \ >- cluster.o \ >- column.o \ >diff -ruN tinker.old/pkg-plist tinker/pkg-plist >--- tinker.old/pkg-plist Mon Dec 31 14:45:33 2001 >+++ tinker/pkg-plist Mon Dec 31 20:58:51 2001 >@@ -14,6 +14,7 @@ > bin/minimize > bin/minirot > bin/minrigid >+bin/monte > bin/newton > bin/newtrot > bin/nucleic >@@ -139,19 +140,18 @@ > %%PORTDOCS%%share/tinker/bench/results-3.7 > %%PORTDOCS%%share/tinker/bench/results-3.8 > %%PORTDOCS%%share/tinker/bench/results-3.9 >-%%PORTDOCS%%share/tinker/params/README >-%%PORTDOCS%%share/tinker/params/amber.prm >-%%PORTDOCS%%share/tinker/params/charmm.prm >-%%PORTDOCS%%share/tinker/params/dudek.prm >-%%PORTDOCS%%share/tinker/params/hoch.prm >-%%PORTDOCS%%share/tinker/params/mm2.prm >-%%PORTDOCS%%share/tinker/params/mm3.prm >-%%PORTDOCS%%share/tinker/params/mm3pro.prm >-%%PORTDOCS%%share/tinker/params/opls.prm >-%%PORTDOCS%%share/tinker/params/oplsaa.prm >-%%PORTDOCS%%share/tinker/params/smooth.prm >-%%PORTDOCS%%share/tinker/params/smoothaa.prm >-%%PORTDOCS%%share/tinker/params/water.prm >+share/tinker/params/README >+share/tinker/params/amber.prm >+share/tinker/params/charmm.prm >+share/tinker/params/hoch.prm >+share/tinker/params/mm2.prm >+share/tinker/params/mm3.prm >+share/tinker/params/mm3pro.prm >+share/tinker/params/opls.prm >+share/tinker/params/oplsaa.prm >+share/tinker/params/smooth.prm >+share/tinker/params/smoothaa.prm >+share/tinker/params/water.prm > %%PORTDOCS%%share/tinker/test/README > %%PORTDOCS%%share/tinker/test/ala20.key > %%PORTDOCS%%share/tinker/test/ala20.xyz >@@ -182,6 +182,9 @@ > %%PORTDOCS%%share/tinker/test/bowl2.xyz > %%PORTDOCS%%share/tinker/test/bowl3.key > %%PORTDOCS%%share/tinker/test/bowl3.xyz >+%%PORTDOCS%%share/tinker/test/bucky.int >+%%PORTDOCS%%share/tinker/test/bucky.key >+%%PORTDOCS%%share/tinker/test/bucky.xyz > %%PORTDOCS%%share/tinker/test/butane.int > %%PORTDOCS%%share/tinker/test/butane.key > %%PORTDOCS%%share/tinker/test/butane.xyz >@@ -202,12 +205,12 @@ > %%PORTDOCS%%share/tinker/test/c5.key > %%PORTDOCS%%share/tinker/test/c5.seq > %%PORTDOCS%%share/tinker/test/c5.xyz >-%%PORTDOCS%%share/tinker/test/c7ax.key >-%%PORTDOCS%%share/tinker/test/c7ax.seq >-%%PORTDOCS%%share/tinker/test/c7ax.xyz >-%%PORTDOCS%%share/tinker/test/c7eq.key >-%%PORTDOCS%%share/tinker/test/c7eq.seq >-%%PORTDOCS%%share/tinker/test/c7eq.xyz >+%%PORTDOCS%%share/tinker/test/c7a.key >+%%PORTDOCS%%share/tinker/test/c7a.seq >+%%PORTDOCS%%share/tinker/test/c7a.xyz >+%%PORTDOCS%%share/tinker/test/c7e.key >+%%PORTDOCS%%share/tinker/test/c7e.seq >+%%PORTDOCS%%share/tinker/test/c7e.xyz > %%PORTDOCS%%share/tinker/test/calmodulin.key > %%PORTDOCS%%share/tinker/test/calmodulin.pdb > %%PORTDOCS%%share/tinker/test/calmodulin.seq >@@ -245,6 +248,9 @@ > %%PORTDOCS%%share/tinker/test/diene.xyz > %%PORTDOCS%%share/tinker/test/dimethane.key > %%PORTDOCS%%share/tinker/test/dimethane.xyz >+%%PORTDOCS%%share/tinker/test/diwater.key >+%%PORTDOCS%%share/tinker/test/diwater.lin >+%%PORTDOCS%%share/tinker/test/diwater.xyz > %%PORTDOCS%%share/tinker/test/enkephalin.int > %%PORTDOCS%%share/tinker/test/enkephalin.key > %%PORTDOCS%%share/tinker/test/enkephalin.make >@@ -271,6 +277,7 @@ > %%PORTDOCS%%share/tinker/test/form.xyz > %%PORTDOCS%%share/tinker/test/formbig.key > %%PORTDOCS%%share/tinker/test/formbig.xyz >+%%PORTDOCS%%share/tinker/test/formbox.dyn > %%PORTDOCS%%share/tinker/test/formbox.key > %%PORTDOCS%%share/tinker/test/formbox.xyz > %%PORTDOCS%%share/tinker/test/furan.int >@@ -292,6 +299,7 @@ > %%PORTDOCS%%share/tinker/test/hexanes.key > %%PORTDOCS%%share/tinker/test/hexanes.run > %%PORTDOCS%%share/tinker/test/hexanes.xyz >+%%PORTDOCS%%share/tinker/test/hexanex.xyz > %%PORTDOCS%%share/tinker/test/imidazole.int > %%PORTDOCS%%share/tinker/test/imidazole.key > %%PORTDOCS%%share/tinker/test/imidazole.xyz >@@ -300,10 +308,14 @@ > %%PORTDOCS%%share/tinker/test/imine.xyz > %%PORTDOCS%%share/tinker/test/lactam.key > %%PORTDOCS%%share/tinker/test/lactam.xyz >+%%PORTDOCS%%share/tinker/test/lipid.key >+%%PORTDOCS%%share/tinker/test/lipid.xyz > %%PORTDOCS%%share/tinker/test/melittin.key > %%PORTDOCS%%share/tinker/test/melittin.pdb > %%PORTDOCS%%share/tinker/test/melittin.seq > %%PORTDOCS%%share/tinker/test/melittin.xyz >+%%PORTDOCS%%share/tinker/test/membrane.key >+%%PORTDOCS%%share/tinker/test/membrane.xyz > %%PORTDOCS%%share/tinker/test/methane.int > %%PORTDOCS%%share/tinker/test/methane.key > %%PORTDOCS%%share/tinker/test/methane.xyz >@@ -314,6 +326,9 @@ > %%PORTDOCS%%share/tinker/test/naphthalene.int > %%PORTDOCS%%share/tinker/test/naphthalene.key > %%PORTDOCS%%share/tinker/test/naphthalene.xyz >+%%PORTDOCS%%share/tinker/test/nitrogen.dyn >+%%PORTDOCS%%share/tinker/test/nitrogen.key >+%%PORTDOCS%%share/tinker/test/nitrogen.xyz > %%PORTDOCS%%share/tinker/test/nma.int > %%PORTDOCS%%share/tinker/test/nma.key > %%PORTDOCS%%share/tinker/test/nma.xyz >@@ -342,6 +357,8 @@ > %%PORTDOCS%%share/tinker/test/peptide.xyz > %%PORTDOCS%%share/tinker/test/phenanth.key > %%PORTDOCS%%share/tinker/test/phenanth.xyz >+%%PORTDOCS%%share/tinker/test/pol3.key >+%%PORTDOCS%%share/tinker/test/pol3.xyz > %%PORTDOCS%%share/tinker/test/propane.key > %%PORTDOCS%%share/tinker/test/propane.ray > %%PORTDOCS%%share/tinker/test/propane.xyz >@@ -358,6 +375,8 @@ > %%PORTDOCS%%share/tinker/test/pyrrole.xyz > %%PORTDOCS%%share/tinker/test/retinoic.key > %%PORTDOCS%%share/tinker/test/retinoic.xyz >+%%PORTDOCS%%share/tinker/test/skunk.key >+%%PORTDOCS%%share/tinker/test/skunk.xyz > %%PORTDOCS%%share/tinker/test/sterol.key > %%PORTDOCS%%share/tinker/test/sterol.xyz > %%PORTDOCS%%share/tinker/test/styrene.int >@@ -394,13 +413,16 @@ > %%PORTDOCS%%share/tinker/test/watersmall.dyn > %%PORTDOCS%%share/tinker/test/watersmall.key > %%PORTDOCS%%share/tinker/test/watersmall.xyz >+%%PORTDOCS%%share/tinker/test/watertiny.dyn >+%%PORTDOCS%%share/tinker/test/watertiny.key >+%%PORTDOCS%%share/tinker/test/watertiny.xyz > %%PORTDOCS%%share/tinker/test/white.int > %%PORTDOCS%%share/tinker/test/white.key > %%PORTDOCS%%share/tinker/test/white.xyz >-%%PORTDOCS%%share/tinker/tinker.txt >+share/tinker/tinker.txt > %%PORTDOCS%%@dirrm share/doc/tinker > %%PORTDOCS%%@dirrm share/examples/tinker > %%PORTDOCS%%@dirrm share/tinker/bench >-%%PORTDOCS%%@dirrm share/tinker/params >+@dirrm share/tinker/params > %%PORTDOCS%%@dirrm share/tinker/test >-%%PORTDOCS%%@dirrm share/tinker >+@dirrm share/tinker >diff -ruN tinker.old/pkg-plist.viewer tinker/pkg-plist.viewer >--- tinker.old/pkg-plist.viewer Mon Dec 31 14:45:33 2001 >+++ tinker/pkg-plist.viewer Mon Dec 31 21:01:45 2001 >@@ -14,6 +14,7 @@ > bin/minimize > bin/minirot > bin/minrigid >+bin/monte > bin/newton > bin/newtrot > bin/nucleic >@@ -143,20 +144,19 @@ > %%PORTDOCS%%share/tinker/bench/results-3.7 > %%PORTDOCS%%share/tinker/bench/results-3.8 > %%PORTDOCS%%share/tinker/bench/results-3.9 >-%%PORTDOCS%%share/tinker/params/README >-%%PORTDOCS%%share/tinker/params/amber.prm >-%%PORTDOCS%%share/tinker/params/charmm.prm >-%%PORTDOCS%%share/tinker/params/dudek.prm >-%%PORTDOCS%%share/tinker/params/hoch.prm >-%%PORTDOCS%%share/tinker/params/mm2.prm >-%%PORTDOCS%%share/tinker/params/mm3.prm >-%%PORTDOCS%%share/tinker/params/mm3pro.prm >-%%PORTDOCS%%share/tinker/params/opls.prm >-%%PORTDOCS%%share/tinker/params/oplsaa.prm >-%%PORTDOCS%%share/tinker/params/smooth.prm >-%%PORTDOCS%%share/tinker/params/smoothaa.prm >-%%PORTDOCS%%share/tinker/params/water.prm >-%%PORTDOCS%%share/tinker/rasmol/rasmol.hlp >+share/tinker/params/README >+share/tinker/params/amber.prm >+share/tinker/params/charmm.prm >+share/tinker/params/hoch.prm >+share/tinker/params/mm2.prm >+share/tinker/params/mm3.prm >+share/tinker/params/mm3pro.prm >+share/tinker/params/opls.prm >+share/tinker/params/oplsaa.prm >+share/tinker/params/smooth.prm >+share/tinker/params/smoothaa.prm >+share/tinker/params/water.prm >+share/tinker/rasmol/rasmol.hlp > %%PORTDOCS%%share/tinker/test/README > %%PORTDOCS%%share/tinker/test/ala20.key > %%PORTDOCS%%share/tinker/test/ala20.xyz >@@ -187,6 +187,9 @@ > %%PORTDOCS%%share/tinker/test/bowl2.xyz > %%PORTDOCS%%share/tinker/test/bowl3.key > %%PORTDOCS%%share/tinker/test/bowl3.xyz >+%%PORTDOCS%%share/tinker/test/bucky.int >+%%PORTDOCS%%share/tinker/test/bucky.key >+%%PORTDOCS%%share/tinker/test/bucky.xyz > %%PORTDOCS%%share/tinker/test/butane.int > %%PORTDOCS%%share/tinker/test/butane.key > %%PORTDOCS%%share/tinker/test/butane.xyz >@@ -207,12 +210,12 @@ > %%PORTDOCS%%share/tinker/test/c5.key > %%PORTDOCS%%share/tinker/test/c5.seq > %%PORTDOCS%%share/tinker/test/c5.xyz >-%%PORTDOCS%%share/tinker/test/c7ax.key >-%%PORTDOCS%%share/tinker/test/c7ax.seq >-%%PORTDOCS%%share/tinker/test/c7ax.xyz >-%%PORTDOCS%%share/tinker/test/c7eq.key >-%%PORTDOCS%%share/tinker/test/c7eq.seq >-%%PORTDOCS%%share/tinker/test/c7eq.xyz >+%%PORTDOCS%%share/tinker/test/c7a.key >+%%PORTDOCS%%share/tinker/test/c7a.seq >+%%PORTDOCS%%share/tinker/test/c7a.xyz >+%%PORTDOCS%%share/tinker/test/c7e.key >+%%PORTDOCS%%share/tinker/test/c7e.seq >+%%PORTDOCS%%share/tinker/test/c7e.xyz > %%PORTDOCS%%share/tinker/test/calmodulin.key > %%PORTDOCS%%share/tinker/test/calmodulin.pdb > %%PORTDOCS%%share/tinker/test/calmodulin.seq >@@ -250,6 +253,9 @@ > %%PORTDOCS%%share/tinker/test/diene.xyz > %%PORTDOCS%%share/tinker/test/dimethane.key > %%PORTDOCS%%share/tinker/test/dimethane.xyz >+%%PORTDOCS%%share/tinker/test/diwater.key >+%%PORTDOCS%%share/tinker/test/diwater.lin >+%%PORTDOCS%%share/tinker/test/diwater.xyz > %%PORTDOCS%%share/tinker/test/enkephalin.int > %%PORTDOCS%%share/tinker/test/enkephalin.key > %%PORTDOCS%%share/tinker/test/enkephalin.make >@@ -276,6 +282,7 @@ > %%PORTDOCS%%share/tinker/test/form.xyz > %%PORTDOCS%%share/tinker/test/formbig.key > %%PORTDOCS%%share/tinker/test/formbig.xyz >+%%PORTDOCS%%share/tinker/test/formbox.dyn > %%PORTDOCS%%share/tinker/test/formbox.key > %%PORTDOCS%%share/tinker/test/formbox.xyz > %%PORTDOCS%%share/tinker/test/furan.int >@@ -297,6 +304,7 @@ > %%PORTDOCS%%share/tinker/test/hexanes.key > %%PORTDOCS%%share/tinker/test/hexanes.run > %%PORTDOCS%%share/tinker/test/hexanes.xyz >+%%PORTDOCS%%share/tinker/test/hexanex.xyz > %%PORTDOCS%%share/tinker/test/imidazole.int > %%PORTDOCS%%share/tinker/test/imidazole.key > %%PORTDOCS%%share/tinker/test/imidazole.xyz >@@ -305,10 +313,14 @@ > %%PORTDOCS%%share/tinker/test/imine.xyz > %%PORTDOCS%%share/tinker/test/lactam.key > %%PORTDOCS%%share/tinker/test/lactam.xyz >+%%PORTDOCS%%share/tinker/test/lipid.key >+%%PORTDOCS%%share/tinker/test/lipid.xyz > %%PORTDOCS%%share/tinker/test/melittin.key > %%PORTDOCS%%share/tinker/test/melittin.pdb > %%PORTDOCS%%share/tinker/test/melittin.seq > %%PORTDOCS%%share/tinker/test/melittin.xyz >+%%PORTDOCS%%share/tinker/test/membrane.key >+%%PORTDOCS%%share/tinker/test/membrane.xyz > %%PORTDOCS%%share/tinker/test/methane.int > %%PORTDOCS%%share/tinker/test/methane.key > %%PORTDOCS%%share/tinker/test/methane.xyz >@@ -319,6 +331,9 @@ > %%PORTDOCS%%share/tinker/test/naphthalene.int > %%PORTDOCS%%share/tinker/test/naphthalene.key > %%PORTDOCS%%share/tinker/test/naphthalene.xyz >+%%PORTDOCS%%share/tinker/test/nitrogen.dyn >+%%PORTDOCS%%share/tinker/test/nitrogen.key >+%%PORTDOCS%%share/tinker/test/nitrogen.xyz > %%PORTDOCS%%share/tinker/test/nma.int > %%PORTDOCS%%share/tinker/test/nma.key > %%PORTDOCS%%share/tinker/test/nma.xyz >@@ -347,6 +362,8 @@ > %%PORTDOCS%%share/tinker/test/peptide.xyz > %%PORTDOCS%%share/tinker/test/phenanth.key > %%PORTDOCS%%share/tinker/test/phenanth.xyz >+%%PORTDOCS%%share/tinker/test/pol3.key >+%%PORTDOCS%%share/tinker/test/pol3.xyz > %%PORTDOCS%%share/tinker/test/propane.key > %%PORTDOCS%%share/tinker/test/propane.ray > %%PORTDOCS%%share/tinker/test/propane.xyz >@@ -363,6 +380,8 @@ > %%PORTDOCS%%share/tinker/test/pyrrole.xyz > %%PORTDOCS%%share/tinker/test/retinoic.key > %%PORTDOCS%%share/tinker/test/retinoic.xyz >+%%PORTDOCS%%share/tinker/test/skunk.key >+%%PORTDOCS%%share/tinker/test/skunk.xyz > %%PORTDOCS%%share/tinker/test/sterol.key > %%PORTDOCS%%share/tinker/test/sterol.xyz > %%PORTDOCS%%share/tinker/test/styrene.int >@@ -399,14 +418,17 @@ > %%PORTDOCS%%share/tinker/test/watersmall.dyn > %%PORTDOCS%%share/tinker/test/watersmall.key > %%PORTDOCS%%share/tinker/test/watersmall.xyz >+%%PORTDOCS%%share/tinker/test/watertiny.dyn >+%%PORTDOCS%%share/tinker/test/watertiny.key >+%%PORTDOCS%%share/tinker/test/watertiny.xyz > %%PORTDOCS%%share/tinker/test/white.int > %%PORTDOCS%%share/tinker/test/white.key > %%PORTDOCS%%share/tinker/test/white.xyz >-%%PORTDOCS%%share/tinker/tinker.txt >+share/tinker/tinker.txt > %%PORTDOCS%%@dirrm share/doc/tinker > %%PORTDOCS%%@dirrm share/examples/tinker > %%PORTDOCS%%@dirrm share/tinker/bench >-%%PORTDOCS%%@dirrm share/tinker/params >-%%PORTDOCS%%@dirrm share/tinker/rasmol >+@dirrm share/tinker/params >+@dirrm share/tinker/rasmol > %%PORTDOCS%%@dirrm share/tinker/test >-%%PORTDOCS%%@dirrm share/tinker >+@dirrm share/tinker
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bug 33425
: 18645