diff options
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/hmmer/DESCR | 6 | ||||
| -rw-r--r-- | biology/hmmer/Makefile | 16 | ||||
| -rw-r--r-- | biology/hmmer/PLIST | 20 | ||||
| -rw-r--r-- | biology/hmmer/distinfo | 5 | ||||
| -rw-r--r-- | biology/hmmer/patches/patch-aa | 27 |
5 files changed, 74 insertions, 0 deletions
diff --git a/biology/hmmer/DESCR b/biology/hmmer/DESCR new file mode 100644 index 00000000000..fe451f2ada7 --- /dev/null +++ b/biology/hmmer/DESCR @@ -0,0 +1,6 @@ +HMMER is an implementation of profile HMM methods for sensitive database +searches using multiple sequence alignments as queries. HMMER takes +multiple sequence alignement as input and builds statistical model +called "Hidden Markov Model" which can be used as a query into a +sequence database to find and/or align additional homologues of the +sequence family. diff --git a/biology/hmmer/Makefile b/biology/hmmer/Makefile new file mode 100644 index 00000000000..db1c4d7d724 --- /dev/null +++ b/biology/hmmer/Makefile @@ -0,0 +1,16 @@ +# $NetBSD: Makefile,v 1.1.1.1 2003/09/26 03:52:47 jschauma Exp $ +# + +DISTNAME= hmmer-2.3.1 +WRKSRC= ${WRKDIR}/hmmer-2.3.1 +CATEGORIES= biology +MASTER_SITES= ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/2.3.1/ + +MAINTAINER= hdp@cs.nmsu.edu +HOMEPAGE= http://hmmer.wustl.edu +COMMENT= Implementation of profile HMM software for protein sequence analysis + +USE_BUILDLINK2= yes +GNU_CONFIGURE= yes + +.include "../../mk/bsd.pkg.mk" diff --git a/biology/hmmer/PLIST b/biology/hmmer/PLIST new file mode 100644 index 00000000000..5dd1779c36a --- /dev/null +++ b/biology/hmmer/PLIST @@ -0,0 +1,20 @@ +@comment $NetBSD: PLIST,v 1.1.1.1 2003/09/26 03:52:47 jschauma Exp $ +bin/hmmalign +bin/hmmbuild +bin/hmmcalibrate +bin/hmmconvert +bin/hmmemit +bin/hmmfetch +bin/hmmindex +bin/hmmpfam +bin/hmmsearch +man/man1/hmmalign.1 +man/man1/hmmbuild.1 +man/man1/hmmcalibrate.1 +man/man1/hmmconvert.1 +man/man1/hmmemit.1 +man/man1/hmmer.1 +man/man1/hmmfetch.1 +man/man1/hmmindex.1 +man/man1/hmmpfam.1 +man/man1/hmmsearch.1 diff --git a/biology/hmmer/distinfo b/biology/hmmer/distinfo new file mode 100644 index 00000000000..81045d8f3ec --- /dev/null +++ b/biology/hmmer/distinfo @@ -0,0 +1,5 @@ +$NetBSD: distinfo,v 1.1.1.1 2003/09/26 03:52:47 jschauma Exp $ + +SHA1 (hmmer-2.3.1.tar.gz) = bf6a3ec56c24332d7e66d6ce8865de1d72dce01f +Size (hmmer-2.3.1.tar.gz) = 1023122 bytes +SHA1 (patch-aa) = c5aa41137bb339a584948b6dc88317c98b4ff6fd diff --git a/biology/hmmer/patches/patch-aa b/biology/hmmer/patches/patch-aa new file mode 100644 index 00000000000..08716d03d06 --- /dev/null +++ b/biology/hmmer/patches/patch-aa @@ -0,0 +1,27 @@ +$NetBSD: patch-aa,v 1.1.1.1 2003/09/26 03:52:47 jschauma Exp $ + +--- Makefile.in.orig 2003-06-13 17:05:13.000000000 -0400 ++++ Makefile.in 2003-09-25 23:47:27.000000000 -0400 +@@ -30,11 +30,12 @@ + exec_prefix = @exec_prefix@ + BINDIR = @bindir@ + MANDIR = @mandir@ ++INSTBIN = ${BSD_INSTALL_PROGRAM} + + # how to install the man pages; + # cp is generally fine, unless you preformat your pages. + # +-INSTMAN = cp ++INSTMAN = ${BSD_INSTALL_MAN} + MANSUFFIX = 1 + + # your compiler and compiler flags +@@ -112,7 +113,7 @@ + mkdir -p ${BINDIR} + -mkdir -p ${MANDIR}/man${MANSUFFIX} + for file in $(PROGS) $(PVMPROGS); do\ +- cp src/$$file $(BINDIR)/;\ ++ $(INSTBIN) src/$$file $(BINDIR)/;\ + done + -for file in hmmer $(PROGS); do\ + $(INSTMAN) documentation/man/$$file.man $(MANDIR)/man$(MANSUFFIX)/$$file.$(MANSUFFIX);\ |