diff options
author | Neil Blakey-Milner <nbm@FreeBSD.org> | 2000-07-31 19:13:54 +0000 |
---|---|---|
committer | Neil Blakey-Milner <nbm@FreeBSD.org> | 2000-07-31 19:13:54 +0000 |
commit | ed9505e0ad5c73de8e28d69a6b8223a011a47a7b (patch) | |
tree | 7348540250d3724e5e4b6a6240f803a5040230d2 /biology/emboss | |
parent | This needs a repository copy. (diff) |
Add emboss, the European Molecular Biology Open Software Suite
PR: ports/20317
Submitted by: Johann Visagie <johann@egenetics.com>
Notes
Notes:
svn path=/head/; revision=31178
Diffstat (limited to 'biology/emboss')
-rw-r--r-- | biology/emboss/Makefile | 26 | ||||
-rw-r--r-- | biology/emboss/distinfo | 1 | ||||
-rw-r--r-- | biology/emboss/pkg-comment | 1 | ||||
-rw-r--r-- | biology/emboss/pkg-descr | 15 | ||||
-rw-r--r-- | biology/emboss/pkg-plist | 656 |
5 files changed, 699 insertions, 0 deletions
diff --git a/biology/emboss/Makefile b/biology/emboss/Makefile new file mode 100644 index 000000000000..cc038a5ff719 --- /dev/null +++ b/biology/emboss/Makefile @@ -0,0 +1,26 @@ +# New ports collection makefile for: emboss +# Date created: 31 July 2000 +# Whom: Johann Visagie <johann@egenetics.com> +# +# $FreeBSD$ +# + +PORTNAME= emboss +PORTVERSION= 1.0.0 +CATEGORIES= biology +MASTER_SITES= ftp://ftp.uk.embnet.org/pub/EMBOSS/ +DISTNAME= EMBOSS-${PORTVERSION} + +MAINTAINER= johann@egenetics.com + +LIB_DEPENDS= gd.1:${PORTSDIR}/graphics/gd \ + png.4:${PORTSDIR}/graphics/png + +USE_GMAKE= yes +GNU_CONFIGURE= yes +USE_LIBTOOL= yes + +CONFIGURE_ENV= CPPFLAGS="-I${LOCALBASE}/include/gd" \ + LIBS="-L${LOCALBASE}/lib" + +.include <bsd.port.mk> diff --git a/biology/emboss/distinfo b/biology/emboss/distinfo new file mode 100644 index 000000000000..274c24a97dfa --- /dev/null +++ b/biology/emboss/distinfo @@ -0,0 +1 @@ +MD5 (EMBOSS-1.0.0.tar.gz) = 7b8e7bebdef3adfb6fe45a2d346318fb diff --git a/biology/emboss/pkg-comment b/biology/emboss/pkg-comment new file mode 100644 index 000000000000..5b05a785f6fc --- /dev/null +++ b/biology/emboss/pkg-comment @@ -0,0 +1 @@ +A collection of open source tools for genetic sequence analysis diff --git a/biology/emboss/pkg-descr b/biology/emboss/pkg-descr new file mode 100644 index 000000000000..3b212c44b033 --- /dev/null +++ b/biology/emboss/pkg-descr @@ -0,0 +1,15 @@ +The European Molecular Biology Open Software Suite (EMBOSS) is a +comprehensive set (about 100) of open source tools for genetic sequence +analysis. EMBOSS is produced by the European Molecular Biology Network +(EMBnet - http://www.embnet.org/). + +All EMBOSS tools are all built around the same set of core libraries - AJAX +and NUCLEUS - and therefore share a unified user interface and a uniform +sequence addressing methodology. + +The various components of EMBOSS are distributed under the GPL, except the +core libraries which are under the LGPL. + +WWW: http://www.uk.embnet.org/Software/EMBOSS/ + +-- Johann Visagie <johann@egenetics.com> diff --git a/biology/emboss/pkg-plist b/biology/emboss/pkg-plist new file mode 100644 index 000000000000..0f02fc997526 --- /dev/null +++ b/biology/emboss/pkg-plist @@ -0,0 +1,656 @@ +bin/acdc +bin/antigenic +bin/backtranseq +bin/banana +bin/chaos +bin/checktrans +bin/chips +bin/cirdna +bin/codcmp +bin/complex +bin/compseq +bin/cpgplot +bin/cpgreport +bin/cusp +bin/cutseq +bin/dan +bin/dbiblast +bin/dbiflat +bin/dbigcg +bin/descseq +bin/digest +bin/dotmatcher +bin/dottup +bin/dreg +bin/einverted +bin/embossdata +bin/emma +bin/equicktandem +bin/est2genome +bin/etandem +bin/extractseq +bin/findkm +bin/freak +bin/fuzznuc +bin/fuzzpro +bin/fuzztran +bin/garnier +bin/geecee +bin/getorf +bin/helixturnhelix +bin/iep +bin/infoseq +bin/isochore +bin/lindna +bin/maskfeat +bin/maskseq +bin/matcher +bin/merger +bin/msbar +bin/needle +bin/newcpgreport +bin/newcpgseek +bin/newseq +bin/noreturn +bin/nthseq +bin/octanol +bin/oddcomp +bin/palindrome +bin/pasteseq +bin/patmatdb +bin/patmatmotifs +bin/pepcoil +bin/pepinfo +bin/pepnet +bin/pepstats +bin/pepwheel +bin/pepwindow +bin/pepwindowall +bin/plotorf +bin/polydot +bin/preg +bin/prettyplot +bin/prettyseq +bin/prima +bin/printsextract +bin/profit +bin/prophecy +bin/prophet +bin/prosextract +bin/pscan +bin/rebaseextract +bin/redata +bin/remap +bin/restrict +bin/revseq +bin/seealso +bin/seqmatchall +bin/seqret +bin/seqretall +bin/seqretset +bin/seqretsplit +bin/showdb +bin/showfeat +bin/showorf +bin/showseq +bin/shuffleseq +bin/sigcleave +bin/splitter +bin/stretcher +bin/stssearch +bin/supermatcher +bin/syco +bin/textsearch +bin/tfextract +bin/tfscan +bin/tmap +bin/transeq +bin/trimseq +bin/water +bin/wobble +bin/wordcount +bin/wordmatch +bin/wossname +lib/libplplot.so.4 +lib/libplplot.so +lib/libplplot.a +lib/libajax.so.1 +lib/libajax.so +lib/libajax.a +lib/libajaxg.so.1 +lib/libajaxg.so +lib/libajaxg.a +lib/libnucleus.so.1 +lib/libnucleus.so +lib/libnucleus.a +share/EMBOSS/plstnd5.fnt +share/EMBOSS/plxtnd5.fnt +share/EMBOSS/acd/ajbad.acd +share/EMBOSS/acd/ajfeatest.acd +share/EMBOSS/acd/ajtest.acd +share/EMBOSS/acd/ajtest2.acd +share/EMBOSS/acd/cluster.acd +share/EMBOSS/acd/demofeatures.acd +share/EMBOSS/acd/demolist.acd +share/EMBOSS/acd/demosequence.acd +share/EMBOSS/acd/demostring.acd +share/EMBOSS/acd/demotable.acd +share/EMBOSS/acd/entrails.acd +share/EMBOSS/acd/histogramtest.acd +share/EMBOSS/acd/patmattest.acd +share/EMBOSS/acd/plplottest.acd +share/EMBOSS/acd/proteinmotifsearch.acd +share/EMBOSS/acd/seqinfo.acd +share/EMBOSS/acd/seqretallfeat.acd +share/EMBOSS/acd/seqretfeat.acd +share/EMBOSS/acd/seqtofeat.acd +share/EMBOSS/acd/simplesw.acd +share/EMBOSS/acd/testplot.acd +share/EMBOSS/acd/treetypedisplay.acd +share/EMBOSS/acd/antigenic.acd +share/EMBOSS/acd/backtranseq.acd +share/EMBOSS/acd/banana.acd +share/EMBOSS/acd/chaos.acd +share/EMBOSS/acd/checktrans.acd +share/EMBOSS/acd/chips.acd +share/EMBOSS/acd/cirdna.acd +share/EMBOSS/acd/codcmp.acd +share/EMBOSS/acd/complex.acd +share/EMBOSS/acd/compseq.acd +share/EMBOSS/acd/cpgplot.acd +share/EMBOSS/acd/cpgreport.acd +share/EMBOSS/acd/cusp.acd +share/EMBOSS/acd/cutseq.acd +share/EMBOSS/acd/dan.acd +share/EMBOSS/acd/dbiblast.acd +share/EMBOSS/acd/dbiflat.acd +share/EMBOSS/acd/dbigcg.acd +share/EMBOSS/acd/descseq.acd +share/EMBOSS/acd/digest.acd +share/EMBOSS/acd/dotmatcher.acd +share/EMBOSS/acd/dottup.acd +share/EMBOSS/acd/dreg.acd +share/EMBOSS/acd/einverted.acd +share/EMBOSS/acd/embossdata.acd +share/EMBOSS/acd/emma.acd +share/EMBOSS/acd/equicktandem.acd +share/EMBOSS/acd/est2genome.acd +share/EMBOSS/acd/etandem.acd +share/EMBOSS/acd/extractseq.acd +share/EMBOSS/acd/findkm.acd +share/EMBOSS/acd/freak.acd +share/EMBOSS/acd/fuzznuc.acd +share/EMBOSS/acd/fuzzpro.acd +share/EMBOSS/acd/fuzztran.acd +share/EMBOSS/acd/garnier.acd +share/EMBOSS/acd/geecee.acd +share/EMBOSS/acd/getorf.acd +share/EMBOSS/acd/helixturnhelix.acd +share/EMBOSS/acd/iep.acd +share/EMBOSS/acd/infoseq.acd +share/EMBOSS/acd/isochore.acd +share/EMBOSS/acd/lindna.acd +share/EMBOSS/acd/maskfeat.acd +share/EMBOSS/acd/maskseq.acd +share/EMBOSS/acd/matcher.acd +share/EMBOSS/acd/merger.acd +share/EMBOSS/acd/msbar.acd +share/EMBOSS/acd/needle.acd +share/EMBOSS/acd/newcpgreport.acd +share/EMBOSS/acd/newcpgseek.acd +share/EMBOSS/acd/newseq.acd +share/EMBOSS/acd/noreturn.acd +share/EMBOSS/acd/nthseq.acd +share/EMBOSS/acd/octanol.acd +share/EMBOSS/acd/oddcomp.acd +share/EMBOSS/acd/palindrome.acd +share/EMBOSS/acd/pasteseq.acd +share/EMBOSS/acd/patmatdb.acd +share/EMBOSS/acd/patmatmotifs.acd +share/EMBOSS/acd/pepcoil.acd +share/EMBOSS/acd/pepinfo.acd +share/EMBOSS/acd/pepnet.acd +share/EMBOSS/acd/pepstats.acd +share/EMBOSS/acd/pepwheel.acd +share/EMBOSS/acd/pepwindow.acd +share/EMBOSS/acd/pepwindowall.acd +share/EMBOSS/acd/plotorf.acd +share/EMBOSS/acd/polydot.acd +share/EMBOSS/acd/preg.acd +share/EMBOSS/acd/prettyplot.acd +share/EMBOSS/acd/prettyseq.acd +share/EMBOSS/acd/prima.acd +share/EMBOSS/acd/printsextract.acd +share/EMBOSS/acd/profit.acd +share/EMBOSS/acd/prophecy.acd +share/EMBOSS/acd/prophet.acd +share/EMBOSS/acd/prosextract.acd +share/EMBOSS/acd/pscan.acd +share/EMBOSS/acd/rebaseextract.acd +share/EMBOSS/acd/redata.acd +share/EMBOSS/acd/remap.acd +share/EMBOSS/acd/restrict.acd +share/EMBOSS/acd/revseq.acd +share/EMBOSS/acd/seqmatchall.acd +share/EMBOSS/acd/seqret.acd +share/EMBOSS/acd/seqretall.acd +share/EMBOSS/acd/seqretset.acd +share/EMBOSS/acd/seqretsplit.acd +share/EMBOSS/acd/showdb.acd +share/EMBOSS/acd/seqrettype.acd +share/EMBOSS/acd/showfeat.acd +share/EMBOSS/acd/showorf.acd +share/EMBOSS/acd/showseq.acd +share/EMBOSS/acd/shuffleseq.acd +share/EMBOSS/acd/sigcleave.acd +share/EMBOSS/acd/splitter.acd +share/EMBOSS/acd/stretcher.acd +share/EMBOSS/acd/stssearch.acd +share/EMBOSS/acd/supermatcher.acd +share/EMBOSS/acd/syco.acd +share/EMBOSS/acd/textsearch.acd +share/EMBOSS/acd/tfextract.acd +share/EMBOSS/acd/tfscan.acd +share/EMBOSS/acd/tmap.acd +share/EMBOSS/acd/transeq.acd +share/EMBOSS/acd/trimseq.acd +share/EMBOSS/acd/water.acd +share/EMBOSS/acd/wobble.acd +share/EMBOSS/acd/wordcount.acd +share/EMBOSS/acd/wordmatch.acd +share/EMBOSS/acd/wossname.acd +share/EMBOSS/acd/codes.english +share/EMBOSS/data/CODONS/Eacc.cut +share/EMBOSS/data/CODONS/Eadenovirus5.cut +share/EMBOSS/data/CODONS/Eadenovirus7.cut +share/EMBOSS/data/CODONS/Eaidlav.cut +share/EMBOSS/data/CODONS/Eanasp.cut +share/EMBOSS/data/CODONS/Eani.cut 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