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Code Issues Releases Activity

- Update to 2.1.3

Browse Source 
- Fix fetching
- Remove old patch and use MAKE_ARGS instead
- portlint(1) and whitespace

Approved by:	erwin (mentor)
This commit is contained in:
Gabor Kovesdan 2006-12-10 12:39:32 +00:00
parent ac97872da3
commit 93e805e722
Notes: svn2git 2021-03-31 03:12:20 +00:00 
svn path=/head/; revision=179374
4 changed files with 19 additions and 33 deletions
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23
biology/migrate/Makefile
View File

@ -6,9 +6,9 @@
#
PORTNAME= migrate
PORTVERSION= 2.0.3
PORTVERSION= 2.1.3
CATEGORIES= biology
MASTER_SITES= ftp://evolution.genetics.washington.edu/pub/lamarc/migrate/
MASTER_SITES= http://popgen.csit.fsu.edu/currentversion/
DISTNAME= ${PORTNAME}-${PORTVERSION}.src
MAINTAINER= ports@FreeBSD.org
@ -17,17 +17,18 @@ COMMENT= A program to estimate population sizes and migration rates
WRKSRC= ${WRKDIR}/${PORTNAME}-${PORTVERSION}/src
GNU_CONFIGURE= yes
CONFIGURE_TARGET= --build=${MACHINE_ARCH}-portbld-freebsd${OSREL}
MAKE_ARGS= CFLAGS="${CFLAGS}"
MAN1= migrate.1
MLINKS= migrate.1 migrate-n.1
DOCS= HISTORY HOWTO-PARALLEL README migrate.html
EXAMPLES= README infile.benchmark infile.ep infile.msat infile.seq \
parmfile parmfile.benchmark parmfile.ep parmfile.msat \
parmfile.seq
EXAMPLES= README infile.ep infile.msat infile.seq \
outfile-bayes-saved outfile-ml-saved \
parmfile parmfile.testbayes parmfile.testml
post-patch:
@${REINPLACE_CMD} 's,-falign-loops=16,,g' ${WRKSRC}/configure
@${REINPLACE_CMD} 's,-falign-loops=16,,g' ${WRKSRC}/configure
do-install:
@ ${INSTALL_PROGRAM} ${WRKSRC}/migrate-n ${PREFIX}/bin
@ -35,12 +36,12 @@ do-install:
@ ${INSTALL_MAN} ${WRKSRC}/migrate.1 ${MAN1PREFIX}/man/man1
.if !defined(NOPORTDOCS)
@ ${MKDIR} ${DOCSDIR}/graphics
.for file in ${DOCS}
@ ${INSTALL_DATA} ${WRKSRC}/../${file} ${DOCSDIR}
.for i in ${DOCS}
@ ${INSTALL_DATA} ${WRKSRC}/../${i} ${DOCSDIR}
.endfor
@ ${MKDIR} ${EXAMPLESDIR}
.for file in ${EXAMPLES}
@ ${INSTALL_DATA} ${WRKSRC}/../example/${file} ${EXAMPLESDIR}
.for i in ${EXAMPLES}
@ ${INSTALL_DATA} ${WRKSRC}/../example/${i} ${EXAMPLESDIR}
.endfor
@ ${INSTALL_DATA} ${WRKSRC}/../graphics/* ${DOCSDIR}/graphics
.endif
@ -48,7 +49,7 @@ do-install:
.include <bsd.port.pre.mk>
.if ${ARCH} == "alpha"
BROKEN= "Does not compile"
BROKEN= Does not compile
.endif
.include <bsd.port.post.mk>

6
biology/migrate/distinfo
View File

@ -1,3 +1,3 @@
MD5 (migrate-2.0.3.src.tar.gz) = 8e8e93790cb66093ad5297dcbfc83439
SHA256 (migrate-2.0.3.src.tar.gz) = f1210cf94e6b67cd762eae5949f97316b082b9f052b4188cf024afc7d8c1db56
SIZE (migrate-2.0.3.src.tar.gz) = 467274
MD5 (migrate-2.1.3.src.tar.gz) = fdff82f3dd509811fa4780287a554931
SHA256 (migrate-2.1.3.src.tar.gz) = 91c8636c5b7a189fd693ddb9a863ff5995abf7157f10bf005e8e3e2497d56023
SIZE (migrate-2.1.3.src.tar.gz) = 1637715

14
biology/migrate/files/patch-Makefile.in
View File

@ -1,14 +0,0 @@
$FreeBSD$
--- Makefile.in.orig
+++ Makefile.in
@@ -40,7 +40,7 @@
COMMONFLAGS = -DHIGHBITS -DHAVE_CONFIG_H -DHAVE_MALLOCWRAP -DBAYESUPDATE
#COMMONFLAGS = -DHIGHBITS -DHAVE_CONFIG_H -DHAVE_MALLOCWRAP -DMERSENNE_TWISTER
COMMONVFLAGS = $(COMMONFLAGS)
-CFLAGS = @CFLAGS@ $(COMMONVFLAGS) -DMIGRATEVERSION=\"\\\" $(MIGRATEVERSION)\\\"\"
+CFLAGS += @CFLAGS@ $(COMMONVFLAGS) -DMIGRATEVERSION=\"\\\" $(MIGRATEVERSION)\\\"\"
# IBM PowerPC compiler on macosx needs also CC=xlc
#CFLAGS = -O3 -Q -qunroll -qalloca -qhot -qipa -qthreaded -Dpowerpc $(COMMONVFLAGS) -DMIGRATEVERSION=\"\\\" $(MIGRATEVERSION)\\\"\"
THREADCFLAGS= @THREADCFLAGS@

9
biology/migrate/pkg-plist
View File

@ -9,15 +9,14 @@ bin/migrate-n
%%PORTDOCS%%%%DOCSDIR%%/graphics/packet.gif
%%PORTDOCS%%%%DOCSDIR%%/migrate.html
%%PORTDOCS%%%%EXAMPLESDIR%%/README
%%PORTDOCS%%%%EXAMPLESDIR%%/infile.benchmark
%%PORTDOCS%%%%EXAMPLESDIR%%/infile.ep
%%PORTDOCS%%%%EXAMPLESDIR%%/infile.msat
%%PORTDOCS%%%%EXAMPLESDIR%%/infile.seq
%%PORTDOCS%%%%EXAMPLESDIR%%/outfile-bayes-saved
%%PORTDOCS%%%%EXAMPLESDIR%%/outfile-ml-saved
%%PORTDOCS%%%%EXAMPLESDIR%%/parmfile
%%PORTDOCS%%%%EXAMPLESDIR%%/parmfile.benchmark
%%PORTDOCS%%%%EXAMPLESDIR%%/parmfile.ep
%%PORTDOCS%%%%EXAMPLESDIR%%/parmfile.msat
%%PORTDOCS%%%%EXAMPLESDIR%%/parmfile.seq
%%PORTDOCS%%%%EXAMPLESDIR%%/parmfile.testbayes
%%PORTDOCS%%%%EXAMPLESDIR%%/parmfile.testml
%%PORTDOCS%%@dirrm %%EXAMPLESDIR%%
%%PORTDOCS%%@dirrm %%DOCSDIR%%/graphics
%%PORTDOCS%%@dirrm %%DOCSDIR%%