Date: Sat, 27 Sep 2008 14:13:31 GMT From: Wen heping <wenheping@gmail.com> To: freebsd-gnats-submit@FreeBSD.org Subject: ports/127683: [Update]biology/paml:update to 4.1 Message-ID: <200809271413.m8REDVwa049300@www.freebsd.org> Resent-Message-ID: <200809271420.m8REK4Ap016478@freefall.freebsd.org>
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>Number: 127683 >Category: ports >Synopsis: [Update]biology/paml:update to 4.1 >Confidential: no >Severity: non-critical >Priority: low >Responsible: freebsd-ports-bugs >State: open >Quarter: >Keywords: >Date-Required: >Class: update >Submitter-Id: current-users >Arrival-Date: Sat Sep 27 14:20:03 UTC 2008 >Closed-Date: >Last-Modified: >Originator: Wen heping >Release: FreeBSD 7.0 release >Organization: ChangAn Middle School >Environment: FreeBSD tinderbox.wenjing.com 7.0-RELEASE FreeBSD 7.0-RELEASE #0: Sun Feb 24 19:59:52 UTC 2008 root@logan.cse.buffalo.edu:/usr/obj/usr/src/sys/GENERIC i386 >Description: 1 update to 4.1 from 3.15 2 take over maintainership >How-To-Repeat: >Fix: Patch attached with submission follows: --- Makefile.orig 2008-09-28 03:47:15.000000000 +0800 +++ Makefile 2008-09-28 04:42:47.000000000 +0800 @@ -6,19 +6,20 @@ # PORTNAME= paml -PORTVERSION= 3.15 +PORTVERSION= 4.1 CATEGORIES= biology MASTER_SITES= http://abacus.gene.ucl.ac.uk/software/ DISTNAME= ${PORTNAME}${PORTVERSION} -MAINTAINER= ports@FreeBSD.org +MAINTAINER= wenheping@gmail.com COMMENT= Phylogenetic Analysis by Maximum Likelihood (PAML) USE_GMAKE= YES -WRKSRC= ${WRKDIR}/${DISTNAME:S/b//g}/src +WRKSRC= ${WRKDIR}/${DISTNAME:S/.//g}/src MAKE_ARGS= CC="${CC}" CFLAGS="${CFLAGS}" BINARIES= baseml basemlg chi2 codeml evolver pamp yn00 +DOC_FILES= MCMCtreeDoc.pdf pamlDOC.pdf pamlFAQs.pdf pamlHistory.txt do-install: .for f in ${BINARIES} @@ -26,8 +27,9 @@ .endfor .if !defined(NOPORTDOCS) ${MKDIR} ${DOCSDIR} - ${INSTALL_DATA} ${WRKDIR}/${DISTNAME:S/b//g}/doc/pamlDOC.pdf \ - ${DOCSDIR} +.for f in ${DOC_FILES} + ${INSTALL_DATA} ${WRKDIR}/${DISTNAME:S/.//g}/doc/${f} ${DOCSDIR} +.endfor .endif .include <bsd.port.mk> --- distinfo.orig 2006-05-21 02:52:19.000000000 +0800 +++ distinfo 2008-09-28 04:18:56.000000000 +0800 @@ -1,3 +1,3 @@ -MD5 (paml3.15.tar.gz) = c54ba7e15a66b57dc1140feea22e5695 -SHA256 (paml3.15.tar.gz) = f698b1d57b514e5e06e746899eae1245d098e96881e2a31c9b8fc956beb4f62a -SIZE (paml3.15.tar.gz) = 2364043 +MD5 (paml4.1.tar.gz) = df8d8a790f5ef29e7266640d4493ec1d +SHA256 (paml4.1.tar.gz) = 64680a56304bb3f5cd61cfc9be253fe1fe37250cb450bceaaf76b99ee08111f1 +SIZE (paml4.1.tar.gz) = 2865301 --- pkg-plist.orig 2008-09-28 03:47:17.000000000 +0800 +++ pkg-plist 2008-09-28 04:43:40.000000000 +0800 @@ -7,4 +7,7 @@ bin/pamp bin/yn00 %%PORTDOCS%%%%DOCSDIR%%/pamlDOC.pdf +%%PORTDOCS%%%%DOCSDIR%%/MCMCtreeDoc.pdf +%%PORTDOCS%%%%DOCSDIR%%/pamlFAQs.pdf +%%PORTDOCS%%%%DOCSDIR%%/pamlHistory.txt %%PORTDOCS%%@dirrm %%DOCSDIR%% >Release-Note: >Audit-Trail: >Unformatted:
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