diff options
author | Johann Visagie <wjv@FreeBSD.org> | 2001-08-22 13:18:10 +0000 |
---|---|---|
committer | Johann Visagie <wjv@FreeBSD.org> | 2001-08-22 13:18:10 +0000 |
commit | 4e8aeac4406cdf01cd8373c1c45da1c2f3e67ab4 (patch) | |
tree | 9cb58a7cacd54f28a1b9b65ef7164e13633a165e /biology/hmmer | |
parent | Add seqio 1.2.2, a set of C functions which can read/write (diff) |
- Update port to version 2.2g
Notes
Notes:
svn path=/head/; revision=46641
Diffstat (limited to 'biology/hmmer')
-rw-r--r-- | biology/hmmer/Makefile | 25 | ||||
-rw-r--r-- | biology/hmmer/distinfo | 2 | ||||
-rw-r--r-- | biology/hmmer/files/patch-Makefile.in | 19 | ||||
-rw-r--r-- | biology/hmmer/pkg-plist | 211 |
4 files changed, 34 insertions, 223 deletions
diff --git a/biology/hmmer/Makefile b/biology/hmmer/Makefile index 4259aba6335c..f3c5ead9cd28 100644 --- a/biology/hmmer/Makefile +++ b/biology/hmmer/Makefile @@ -6,28 +6,29 @@ # PORTNAME= hmmer -PORTVERSION= 2.1.1 +PORTVERSION= 2.2.g CATEGORIES= biology -MASTER_SITES= ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/ -EXTRACT_SUFX= .tar.Z +MASTER_SITES= ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/${VERSIONSTRING}/ +DISTNAME= ${PORTNAME}-${VERSIONSTRING} MAINTAINER= wjv@FreeBSD.org GNU_CONFIGURE= yes USE_PERL5= yes +VERSIONSTRING= ${PORTVERSION:C|\.([^.]*)$|\1|} -MAN1= hmmalign.1 hmmbuild.1 hmmcalibrate.1 hmmconvert.1 hmmemit.1 \ - hmmer.1 hmmpfam.1 hmmsearch.1 hmmfetch.1 hmmindex.1 alistat.1 \ - getseq.1 seqstat.1 sreformat.1 - -HMMER_DOCDIR= ${PREFIX}/share/doc/${PORTNAME} +DOCFILES= 00README COPYRIGHT NOTES Userguide.pdf +MAN1= afetch.1 alistat.1 hmmalign.1 hmmbuild.1 hmmcalibrate.1 \ + hmmconvert.1 hmmemit.1 hmmer.1 hmmfetch.1 hmmindex.1 \ + hmmpfam.1 hmmsearch.1 seqstat.1 sfetch.1 shuffle.1 \ + sreformat.1 post-install: .if !defined(NOPORTDOCS) - @ ${MKDIR} ${HMMER_DOCDIR} - @ ${INSTALL_DATA} ${WRKSRC}/Userguide/Userguide.pdf ${HMMER_DOCDIR} - @ ${INSTALL_DATA} ${WRKSRC}/Userguide/Userguide.ps ${HMMER_DOCDIR} - @ ${TAR} xzfC ${WRKSRC}/Userguide/hmmer-html.tar.Z ${HMMER_DOCDIR} + @ ${MKDIR} ${DOCSDIR} +.for docfile in ${DOCFILES} + @ ${INSTALL_DATA} ${WRKSRC}/${docfile} ${DOCSDIR} +.endfor .endif .if !defined(BATCH) @ ${CAT} ${PKGMESSAGE} diff --git a/biology/hmmer/distinfo b/biology/hmmer/distinfo index 6dbe81b02fd8..99b8a3003bed 100644 --- a/biology/hmmer/distinfo +++ b/biology/hmmer/distinfo @@ -1 +1 @@ -MD5 (hmmer-2.1.1.tar.Z) = 0f98910a3507b4d52fbe82adc6fa89b5 +MD5 (hmmer-2.2g.tar.gz) = d7def2007a0aaf2eafb9a96a07986b8c diff --git a/biology/hmmer/files/patch-Makefile.in b/biology/hmmer/files/patch-Makefile.in index deade1eaceeb..40e1561681b4 100644 --- a/biology/hmmer/files/patch-Makefile.in +++ b/biology/hmmer/files/patch-Makefile.in @@ -1,5 +1,5 @@ ---- Makefile.in.orig Thu Dec 10 01:11:07 1998 -+++ Makefile.in Wed Jul 4 15:41:09 2001 +--- Makefile.in.orig Mon Aug 6 01:55:36 2001 ++++ Makefile.in Wed Aug 22 14:52:30 2001 @@ -34,7 +34,7 @@ # how to install the man pages; # cp is generally fine, unless you preformat your pages. @@ -9,12 +9,19 @@ MANSUFFIX = 1 # your compiler and compiler flags -@@ -142,7 +142,7 @@ - # installs man pages in MANDIR/man1/ (if MANSUFFIX is 1) +@@ -144,12 +144,12 @@ + # installs man pages in MANDIR/man1/ (e.g. if MANSUFFIX is 1) install: for file in $(PROGS) $(SQUIDPROGS) $(PVMPROGS); do\ - cp binaries/$$file $(BINDIR)/;\ + $(BSD_INSTALL_PROGRAM) binaries/$$file $(BINDIR)/;\ done - for file in hmmer $(PROGS) $(SQUIDPROGS); do\ - $(INSTMAN) Man/$$file.man $(MANDIR)/man$(MANSUFFIX)/$$file.$(MANSUFFIX);\ +- for file in hmmer $(PROGS) $(SQUIDPROGS); do\ ++ for file in hmmer $(PROGS); do\ + $(INSTMAN) documentation/man/$$file.man $(MANDIR)/man$(MANSUFFIX)/$$file.$(MANSUFFIX);\ + done +- for file in $(SQUIDPROGS); do\ ++ for file in afetch alistat seqstat sfetch shuffle sreformat; do\ + $(INSTMAN) squid/Man/$$file.man $(MANDIR)/man$(MANSUFFIX)/$$file.$(MANSUFFIX);\ + done + diff --git a/biology/hmmer/pkg-plist b/biology/hmmer/pkg-plist index 86b1ac45a9be..b633cb15c522 100644 --- a/biology/hmmer/pkg-plist +++ b/biology/hmmer/pkg-plist @@ -1,5 +1,5 @@ +bin/afetch bin/alistat -bin/getseq bin/hmmalign bin/hmmbuild bin/hmmcalibrate @@ -10,209 +10,12 @@ bin/hmmindex bin/hmmpfam bin/hmmsearch bin/seqstat +bin/sfetch +bin/shuffle +bin/sindex bin/sreformat +%%PORTDOCS%%share/doc/hmmer/00README +%%PORTDOCS%%share/doc/hmmer/COPYRIGHT +%%PORTDOCS%%share/doc/hmmer/NOTES %%PORTDOCS%%share/doc/hmmer/Userguide.pdf -%%PORTDOCS%%share/doc/hmmer/Userguide.ps -%%PORTDOCS%%share/doc/hmmer/hmmer-html/IMG_PARAMS.db -%%PORTDOCS%%share/doc/hmmer/hmmer-html/TMP/ID_MAP.db -%%PORTDOCS%%share/doc/hmmer/hmmer-html/TMP/ORIG_MAP.db -%%PORTDOCS%%share/doc/hmmer/hmmer-html/TMP/aux_preamble 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