Date: Sun, 27 Jul 2003 14:40:42 -0500 (CDT) From: Mark Linimon <linimon@lonesome.com> To: FreeBSD-gnats-submit@FreeBSD.org Cc: bdodson@scms.utmb.edu Subject: ports/54990: [patch][non-maintainer] fix fetch and plist for biology/nab Message-ID: <200307271940.h6RJegQc026845@lonesome.lonesome.com> Resent-Message-ID: <200307282010.h6SKAAAk006145@freefall.freebsd.org>
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>Number: 54990 >Category: ports >Synopsis: [patch][non-maintainer] fix fetch and plist for biology/nab >Confidential: no >Severity: non-critical >Priority: low >Responsible: freebsd-ports-bugs >State: open >Quarter: >Keywords: >Date-Required: >Class: change-request >Submitter-Id: current-users >Arrival-Date: Mon Jul 28 13:10:10 PDT 2003 >Closed-Date: >Last-Modified: >Originator: Mark Linimon >Release: FreeBSD- >Organization: FreeBSD >Environment: System: FreeBSD lonesome.lonesome.com 4.8-STABLE FreeBSD 4.8-STABLE #1: Sun Jul 13 23:03:01 CDT 2003 root@lonesome.lonesome.com:/usr/src/sys/compile/MULTIMEDIA i386 >Description: Per the mastersite, the distfile has been upgraded: "Version 4.5.2 has some fix-ups to the manual and a faster implementation of the generalized Born algorithm." Also, the plist was incomplete >How-To-Repeat: per bento logs >Fix: The following fixes everything except one file in plist that clearly should not be installed, "/usr/local/share/nab/leap/?????". I'll leave that to the port maintainer to fix and send to the original authors. (There are other questionable files that are installed as well: *.dat~, *.exe). --- nab/Makefile.dist Tue Jul 8 06:50:36 2003 +++ nab/Makefile Sun Jul 27 14:07:44 2003 @@ -6,7 +6,7 @@ # PORTNAME= nab -PORTVERSION= 4.5.1 +PORTVERSION= 4.5.2 CATEGORIES= biology MASTER_SITES= ftp://ftp.scripps.edu/pub/case/ \ http://www.scripps.edu/case/ --- nab/distinfo.dist Tue Jul 8 06:50:36 2003 +++ nab/distinfo Sun Jul 27 14:08:18 2003 @@ -1 +1 @@ -MD5 (nab-4.5.1.tar.gz) = 650be5581dfe5af1b7edb6da44a221d4 +MD5 (nab-4.5.2.tar.gz) = b5e9053e6ae97f36a55cc2a1317e9ba8 --- nab/pkg-plist.dist Tue Jul 8 06:50:36 2003 +++ nab/pkg-plist Sun Jul 27 14:27:40 2003 @@ -54,6 +54,8 @@ share/nab/examples/gcg10.pdb share/nab/examples/gcg10.pdb.save share/nab/examples/getbase.nab +share/nab/examples/program_1.c +share/nab/examples/program_1.exe share/nab/examples/program_1.nab share/nab/examples/program_10.nab share/nab/examples/program_11.nab @@ -186,6 +188,8 @@ share/nab/reslib/leap/parm91X.dat share/nab/reslib/leap/parm91X.ua.dat share/nab/reslib/leap/parm94.dat +share/nab/reslib/leap/parm94.dat.istvan +share/nab/reslib/leap/parm94.dat~ share/nab/reslib/leap/parm94X.dat share/nab/reslib/leap/pro-dna91.nmr.lib share/nab/reslib/leap/pro-dna91.nmr.prepin @@ -266,7 +270,21 @@ share/nab/suppose/suppose.1 share/nab/suppose/suppose.nab share/nab/suppose/trnm.c +share/nab/test/1ubq/1ubq.pdb +share/nab/test/1ubq/5pti.pdb +share/nab/test/1ubq/a.exe +share/nab/test/1ubq/leap.log +share/nab/test/1ubq/out.1 +share/nab/test/1ubq/prmtop +share/nab/test/1ubq/prmtop.1 +share/nab/test/1ubq/rattle_min.c +share/nab/test/1ubq/rattle_min.nab +share/nab/test/1ubq/runleap.c +share/nab/test/1ubq/runleap.nab share/nab/test/2.pdb +share/nab/test/2strand.exe +share/nab/test/2strand.nab +share/nab/test/2strand.pdb share/nab/test/5pti.obs share/nab/test/5pti.pdb share/nab/test/5pti.shifts.check @@ -287,7 +305,7 @@ share/nab/test/gbrna.prmtop share/nab/test/gbrna_long.exe share/nab/test/gbrna_long.nab -share/nab/test/gbrna_long.out +share/nab/test/gbrna_sa.nab share/nab/test/gbtrx.nab share/nab/test/gbtrx.out.check share/nab/test/get_pep_info.nab @@ -299,11 +317,14 @@ share/nab/test/hash.out.check share/nab/test/ico.sym share/nab/test/ico.sym.out.check +share/nab/test/lCmd share/nab/test/ltest.nab share/nab/test/ltest.out.check +share/nab/test/msurf.nab share/nab/test/pointplane.nab share/nab/test/prmtop share/nab/test/prmtop.gb2 +share/nab/test/prmtop.new share/nab/test/rattle_md.nab share/nab/test/rattle_md.out.check share/nab/test/rattle_min.nab @@ -322,6 +343,7 @@ share/nab/test/trxox.2.4ns.pdb share/nab/test/trxox.2.4ns.x share/nab/test/write_sander_inp.nab +@dirrm share/nab/test/1ubq @dirrm share/nab/test @dirrm share/nab/suppose @dirrm share/nab/reslib/rna.amberua --- nab/files/patch-Makefile.dist Sun Jul 27 14:10:14 2003 +++ nab/files/patch-Makefile Sun Jul 27 14:15:24 2003 @@ -6,7 +6,7 @@ +all: compiler test compiler: -mkdir bin lib include -- (cd ucpp-0.7; make install ) +- (cd ucpp-1.3; make install ) (cd cifparse; make install ) (cd src; make install ) (cd nss; make install ) @@ -24,14 +24,14 @@ (cd nss; make test ) clean: -- (cd ucpp-0.7; make clean ) +- (cd ucpp-1.3; make clean ) (cd cifparse; make clean ) (cd src; make clean ) (cd nss; make clean ) (cd tleap; make clean ) uninstall: -- (cd ucpp-0.7; make uninstall ) +- (cd ucpp-1.3; make uninstall ) (cd cifparse; make uninstall ) (cd src; make uninstall ) (cd nss; make uninstall ) >Release-Note: >Audit-Trail: >Unformatted:
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