ports/127683: [Update]biology/paml:update to 4.1
Wen heping
wenheping at gmail.com
Sat Sep 27 14:20:04 UTC 2008
>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 at 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 at FreeBSD.org
+MAINTAINER= wenheping at 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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