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Add ruby-bio (BioRuby), an integrated environment for Bioinformatics

Browse Source 
written in Ruby.
This commit is contained in:
Akinori MUSHA 2001-10-24 06:21:52 +00:00
parent 347602b347
commit b98ad00ebf
Notes: svn2git 2021-03-31 03:12:20 +00:00 
svn path=/head/; revision=49156
6 changed files with 91 additions and 0 deletions
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1
biology/Makefile
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@ -37,6 +37,7 @@
SUBDIR += py-biopython
SUBDIR += rasmol
SUBDIR += recombine
SUBDIR += ruby-bio
SUBDIR += seaview
SUBDIR += seqio
SUBDIR += sim4

34
biology/ruby-bio/Makefile Normal file
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@ -0,0 +1,34 @@
# New ports collection makefile for: BioRuby
# Date created: 24 October 2001
# Whom: Akinori MUSHA aka knu <knu@idaemons.org>
#
# $FreeBSD$
#
PORTNAME= bio
PORTVERSION= 0.3.20011024
CATEGORIES= biology ruby
MASTER_SITES= ftp://ftp.bioruby.org/bioruby/src/
MASTER_SITE_SUBDIR= knu
PKGNAMEPREFIX= ${RUBY_PKGNAMEPREFIX}
DISTNAME= ${PORTNAME}ruby-${PORTVERSION:R}-${PORTVERSION:E}
EXTRACT_SUFX= .tgz
DIST_SUBDIR= ruby
MAINTAINER= knu@FreeBSD.org
USE_RUBY= yes
USE_RUBY_SETUP= yes
RUBY_SETUP= install.rb
RUBY_SHEBANG_FILES= ${WRKSRC}/bin/dbget
do-install:
.if !defined(NOPORTDOCS)
${MKDIR} ${RUBY_EXAMPLESDIR}/${PORTNAME}
${CP} -R ${WRKSRC}/sample/ ${RUBY_EXAMPLESDIR}/${PORTNAME}/
${MKDIR} ${RUBY_DOCDIR}/${PORTNAME}
${CP} -R ${WRKSRC}/README ${RUBY_DOCDIR}/${PORTNAME}/
.endif
.include <bsd.port.mk>

1
biology/ruby-bio/distinfo Normal file
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@ -0,0 +1 @@
MD5 (ruby/bioruby-0.3-20011024.tgz) = b33c40a43ee47236837dad280814384b

1
biology/ruby-bio/pkg-comment Normal file
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@ -0,0 +1 @@
Integrated environment for Bioinformatics written in Ruby

4
biology/ruby-bio/pkg-descr Normal file
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@ -0,0 +1,4 @@
BioRuby project aims to implement integrated environment for
Bioinformatics by using Ruby.
WWW: http://bioruby.org/index.html.en

50
biology/ruby-bio/pkg-plist Normal file
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@ -0,0 +1,50 @@
bin/dbget
%%RUBY_SITELIBDIR%%/bio.rb
%%RUBY_SITELIBDIR%%/bio/data/aa.rb
%%RUBY_SITELIBDIR%%/bio/data/codontable.rb
%%RUBY_SITELIBDIR%%/bio/data/keggorg.rb
%%RUBY_SITELIBDIR%%/bio/data/na.rb
%%RUBY_SITELIBDIR%%/bio/db.rb
%%RUBY_SITELIBDIR%%/bio/db/aaindex.rb
%%RUBY_SITELIBDIR%%/bio/db/ddbj.rb
%%RUBY_SITELIBDIR%%/bio/db/genbank.rb
%%RUBY_SITELIBDIR%%/bio/db/kegg/brite.rb
%%RUBY_SITELIBDIR%%/bio/db/kegg/cell.rb
%%RUBY_SITELIBDIR%%/bio/db/kegg/compound.rb
%%RUBY_SITELIBDIR%%/bio/db/kegg/enzyme.rb
%%RUBY_SITELIBDIR%%/bio/db/kegg/genes.rb
%%RUBY_SITELIBDIR%%/bio/db/kegg/genome.rb
%%RUBY_SITELIBDIR%%/bio/db/litdb.rb
%%RUBY_SITELIBDIR%%/bio/db/medline.rb
%%RUBY_SITELIBDIR%%/bio/db/prosite.rb
%%RUBY_SITELIBDIR%%/bio/db/refseq.rb
%%RUBY_SITELIBDIR%%/bio/db/transfac.rb
%%RUBY_SITELIBDIR%%/bio/io/dbget.rb
%%RUBY_SITELIBDIR%%/bio/io/pubmed.rb
%%RUBY_SITELIBDIR%%/bio/location.rb
%%RUBY_SITELIBDIR%%/bio/matrix.rb
%%RUBY_SITELIBDIR%%/bio/pathway.rb
%%RUBY_SITELIBDIR%%/bio/reference.rb
%%RUBY_SITELIBDIR%%/bio/sequence.rb
%%RUBY_SITELIBDIR%%/bio/util/fold.rb
@dirrm %%RUBY_SITELIBDIR%%/bio/data
@dirrm %%RUBY_SITELIBDIR%%/bio/db/kegg
@dirrm %%RUBY_SITELIBDIR%%/bio/db
@dirrm %%RUBY_SITELIBDIR%%/bio/io
@dirrm %%RUBY_SITELIBDIR%%/bio/util
@dirrm %%RUBY_SITELIBDIR%%/bio
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/fasta2tab.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/fsplit.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/gb2fasta.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/gb2tab.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/genes2nuc.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/genes2pep.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/genes2tab.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/genome2tab.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/gt2fasta.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/ssearch2tab.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/tfastx2tab.rb
%%PORTDOCS%%%%RUBY_EXAMPLESDIR%%/bio/vs-genes.rb
%%PORTDOCS%%@dirrm %%RUBY_EXAMPLESDIR%%/bio
%%PORTDOCS%%%%RUBY_DOCDIR%%/bio/README
%%PORTDOCS%%@dirrm %%RUBY_DOCDIR%%/bio