Fix master sites, un-deprecate and update biology/recombine to 1.41.
This commit is contained in:
Vasil Dimov
parent
35aff202d5
commit
885510efe1
Notes:
svn2git
2021-03-31 03:12:20 +00:00
svn path=/head/; revision=183251
@ -6,28 +6,26 @@
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#
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PORTNAME= recombine
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PORTVERSION= 1.40
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PORTVERSION= 1.41
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CATEGORIES= biology
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MASTER_SITES= ftp://evolution.genetics.washington.edu/pub/lamarc/recombine/
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DISTNAME= ${PORTNAME}${PORTVERSION}
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MASTER_SITES= http://evolution.gs.washington.edu/lamarc/recombine/
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DISTNAME= ${PORTNAME}${PORTVERSION}.src.doc
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MAINTAINER= ports@FreeBSD.org
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COMMENT= A program to fit population models across sites
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DEPRECATED= distfile disappeared from homepage
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EXPIRATION_DATE= 2007-01-07
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WRKSRC= ${WRKDIR}/${PORTNAME}${PORTVERSION}
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NO_WRKSUBDIR= yes
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ALL_TARGET= ${PORTNAME}
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do-install:
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@ ${INSTALL_PROGRAM} ${WRKSRC}/${PORTNAME} ${PREFIX}/bin/
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@ ${INSTALL_SCRIPT} ${WRKSRC}/filetran ${PREFIX}/bin/
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${INSTALL_PROGRAM} ${WRKSRC}/${PORTNAME} ${PREFIX}/bin/
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${INSTALL_SCRIPT} ${WRKSRC}/filetran ${PREFIX}/bin/
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post-install:
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.if !defined(NOPORTDOCS)
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@ ${MKDIR} ${DOCSDIR}
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@ ${INSTALL_DATA} ${WRKSRC}/*.doc ${DOCSDIR}/
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${MKDIR} ${DOCSDIR}
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${INSTALL_DATA} ${WRKSRC}/recombine.txt ${DOCSDIR}/
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.endif
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.include <bsd.port.mk>
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@ -1,3 +1,3 @@
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MD5 (recombine1.40.tar.gz) = 78f308f69c35610fbd31a091b8d17e2f
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SHA256 (recombine1.40.tar.gz) = 9601f94d1fd41233fa8470a03d53fb48bcb3f2e7358b756eebbde278114f1c35
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SIZE (recombine1.40.tar.gz) = 140331
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MD5 (recombine1.41.src.doc.tar.gz) = c833be133188d2482c846a596ae35cb8
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SHA256 (recombine1.41.src.doc.tar.gz) = e247810ef31414f500f9c118b6462b549c761562140519f7c57f305fcb284643
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SIZE (recombine1.41.src.doc.tar.gz) = 149129
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@ -1,6 +1,6 @@
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--- Makefile.orig Wed Oct 25 23:39:34 2000
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+++ Makefile Mon Aug 6 16:13:02 2001
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@@ -1,105 +1,37 @@
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--- Makefile.orig Thu Jan 25 13:59:21 2007
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+++ Makefile Thu Jan 25 14:02:58 2007
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@@ -1,11 +1,6 @@
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LIBS = -lm
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BINDIR = ./bin
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-#CFLAGS = -Wall -Wshadow -g
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@ -13,12 +13,7 @@
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DCC = gcc -g -Wall -DDMALLOC_FUNC_CHECK -ansi -pedantic
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PLUSCC = g++ $(CFLAGS)
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LIBS = -lm -L/usr/local/lib
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DLIBS = -lm -L/usr/local/lib -ldmalloc
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CGCC = checkergcc -g -Wall
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CGLIBS = -lm
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-# -O
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PROGS = recombine
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@@ -18,29 +13,29 @@
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# The big banana
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recombine : recombine.o jdrop.o rec_modellike.o jworld.o getdata.o \
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traitlike.o getmsatdata.o
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@ -52,66 +47,7 @@
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traitlike.o : traitlike.c
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- $(CC) -c traitlike.c
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-
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-rectreedna : rectreedna.c
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- $(CC) -o rectreedna rectreedna.c $(LIBS)
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-
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-hapdna : hapdna.c
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- $(CC) -o hapdna hapdna.c $(LIBS)
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-
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-mhapdna : mhapdna.c
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- $(CC) -o mhapdna mhapdna.c $(LIBS)
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-
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-drecombine.o : recombine.c
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- $(CC) -o drecombine.o -c recombine.c
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-
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-djdrop.o : jdrop.c
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- $(CC) -o djdrop.o -c jdrop.c
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-
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-drec_modellike.o : rec_modellike.c
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- $(CC) -o drec_modellike.o -c rec_modellike.c
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-
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-djworld.o : jworld.c
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- $(CC) -o djworld.o -c jworld.c
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-
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-dgetdata.o : getdata.c
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- $(CC) -o dgetdata.o -c getdata.c
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-
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-dgetmsatdata.o : getmsatdata.c
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- $(CC) -o dgetmsatdata.o -c getmsatdata.c
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-
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-drecombine: drecombine.o djdrop.o drec_modellike.o djworld.o dgetdata.o memdebug.o memalpha.o memfree.o \
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- dgetmsatdata.o
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- $(CC) drecombine.o djdrop.o drec_modellike.o djworld.o dgetdata.o memdebug.o memalpha.o memfree.o \
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- dgetmsatdata.o $(LIBS) -o drecombine
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-
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-dclean:
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- rm drecombine.o djdrop.o drec_modellike.o djworld.o dgetdata.o dgetmsatdata.o
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-
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-clean :
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- rm -f *.o
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-
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-gentrees.o : gentrees.c
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- $(CC) -c gentrees.c
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-
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-segtre_mig.o : segtre_mig.c
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- $(CC) -c segtre_mig.c
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-
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-rectree : gentrees.o segtre_mig.o
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- $(CC) gentrees.o segtre_mig.o $(LIBS) -o rectree
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-
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-jrectree : simrectree.c
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- $(CC) simrectree.c $(LIBS) -o jrectree
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-
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-snp : snp.c
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- $(CC) snp.c $(LIBS) -o snp
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-
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-panelmaker : panelmaker.c
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- $(CC) panelmaker.c $(LIBS) -o panelmaker
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-
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-variance : variance.c
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- $(CC) variance.c $(LIBS) -o variance
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-
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-distree : distree.c
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- $(CC) distree.c $(LIBS) -o distree
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+ $(CC) $(CFLAGS) -c traitlike.c
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rectreedna : rectreedna.c
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$(CC) -o rectreedna rectreedna.c $(LIBS)
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@ -1,5 +1,4 @@
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bin/filetran
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bin/recombine
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%%PORTDOCS%%%%DOCSDIR%%/rec_errors.doc
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%%PORTDOCS%%%%DOCSDIR%%/recombine.doc
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%%PORTDOCS%%%%DOCSDIR%%/recombine.txt
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%%PORTDOCS%%@dirrm %%DOCSDIR%%
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