- switch to cpan module
- install examples - sort makefile/dependencies
This commit is contained in:
jasper
parent
5f73174274
commit
5c291dcae9
@ -1,40 +1,44 @@
|
||||
# $OpenBSD: Makefile,v 1.7 2010/11/15 00:22:49 espie Exp $
|
||||
|
||||
CATEGORIES= biology perl5
|
||||
# $OpenBSD: Makefile,v 1.8 2010/12/13 10:26:00 jasper Exp $
|
||||
|
||||
COMMENT= perl tools for bioinformatics
|
||||
HOMEPAGE= http://bioperl.org/
|
||||
MASTER_SITES= ${HOMEPAGE}DIST/
|
||||
|
||||
DISTNAME= bioperl-1.5.0
|
||||
REVISION= 0
|
||||
PKGNAME= ${DISTNAME} # No p5-prefix here.
|
||||
REVISION= 1
|
||||
CATEGORIES= biology
|
||||
|
||||
HOMEPAGE= http://bioperl.org/
|
||||
|
||||
# Artistic License
|
||||
PERMIT_PACKAGE_CDROM=Yes
|
||||
PERMIT_PACKAGE_FTP=Yes
|
||||
PERMIT_DISTFILES_CDROM=Yes
|
||||
PERMIT_DISTFILES_FTP=Yes
|
||||
# perl
|
||||
PERMIT_PACKAGE_CDROM= Yes
|
||||
PERMIT_PACKAGE_FTP= Yes
|
||||
PERMIT_DISTFILES_CDROM= Yes
|
||||
PERMIT_DISTFILES_FTP= Yes
|
||||
|
||||
PKG_ARCH= *
|
||||
MASTER_SITES= ${HOMEPAGE}/DIST/
|
||||
|
||||
RUN_DEPENDS= www/p5-libwww \
|
||||
www/p5-HTML-Parser \
|
||||
devel/p5-IO-stringy \
|
||||
devel/p5-IO-String \
|
||||
textproc/p5-XML-Parser \
|
||||
textproc/p5-XML-Writer \
|
||||
textproc/p5-Libxml \
|
||||
textproc/p5-XML-Twig \
|
||||
www/p5-SOAP-Lite \
|
||||
MODULES= cpan
|
||||
MODCPAN_EXAMPLES= Yes
|
||||
MODCPAN_EXAMPLES_DIR= ${PREFIX}/share/examples/bioperl/
|
||||
|
||||
RUN_DEPENDS= biology/AcePerl \
|
||||
databases/p5-DBD-mysql \
|
||||
graphics/p5-GD \
|
||||
devel/p5-Class-AutoClass \
|
||||
devel/p5-Clone \
|
||||
textproc/p5-XML-SAX \
|
||||
graphics/p5-SVG \
|
||||
biology/AcePerl \
|
||||
graphics/p5-GD-SVG \
|
||||
devel/p5-Graph \
|
||||
devel/p5-Class-AutoClass
|
||||
devel/p5-IO-String \
|
||||
devel/p5-IO-stringy \
|
||||
graphics/p5-GD \
|
||||
graphics/p5-GD-SVG \
|
||||
graphics/p5-SVG \
|
||||
textproc/p5-Libxml \
|
||||
textproc/p5-XML-Parser \
|
||||
textproc/p5-XML-SAX \
|
||||
textproc/p5-XML-Twig \
|
||||
textproc/p5-XML-Writer \
|
||||
www/p5-HTML-Parser \
|
||||
www/p5-SOAP-Lite \
|
||||
www/p5-libwww
|
||||
|
||||
REGRESS_DEPENDS=${RUN_DEPENDS}
|
||||
|
||||
@ -46,10 +50,9 @@ REGRESS_DEPENDS=${RUN_DEPENDS}
|
||||
# srsperl, Sequence Retrieval System (SRS) perl
|
||||
# (needed for API/alternative way of retrieving sequences/Bio::LiveSeq::IO::SRS.pm)
|
||||
|
||||
|
||||
CONFIGURE_STYLE= perl
|
||||
CONFIGURE_ENV+= PERL_MM_USE_DEFAULT=Yes
|
||||
CONFIGURE_ENV+= PERL_MM_USE_DEFAULT=Yes
|
||||
|
||||
pre-configure:
|
||||
@rm -f ${WRKSRC}/Bio/Graphics/FeatureFile.pm.orig
|
||||
|
||||
.include <bsd.port.mk>
|
||||
|
||||
@ -1,4 +1,4 @@
|
||||
@comment $OpenBSD: PLIST,v 1.1.1.1 2005/03/03 01:42:12 espie Exp $
|
||||
@comment $OpenBSD: PLIST,v 1.2 2010/12/13 10:26:00 jasper Exp $
|
||||
bin/bp_aacomp.pl
|
||||
bin/bp_biblio.pl
|
||||
bin/bp_biofetch_genbank_proxy.pl
|
||||
@ -956,3 +956,92 @@ ${P5SITE}/biodesign.pod
|
||||
${P5SITE}/bioperl.pod
|
||||
${P5SITE}/bioscripts.pod
|
||||
${P5SITE}/bptutorial.pl
|
||||
share/examples/bioperl/
|
||||
share/examples/bioperl/Bio-DB-GFF/
|
||||
share/examples/bioperl/Bio-DB-GFF/load_ucsc.pl
|
||||
share/examples/bioperl/align/
|
||||
share/examples/bioperl/align/align_on_codons.pl
|
||||
share/examples/bioperl/align/aligntutorial.pl
|
||||
share/examples/bioperl/align/clustalw.pl
|
||||
share/examples/bioperl/align/simplealign.pl
|
||||
share/examples/bioperl/biblio/
|
||||
share/examples/bioperl/biblio/biblio_examples.pl
|
||||
share/examples/bioperl/biblio/biblio_soap.pl
|
||||
share/examples/bioperl/biographics/
|
||||
share/examples/bioperl/biographics/all_glyphs.pl
|
||||
share/examples/bioperl/biographics/dynamic_glyphs.pl
|
||||
share/examples/bioperl/biographics/feature_data.gff
|
||||
share/examples/bioperl/biographics/feature_data.txt
|
||||
share/examples/bioperl/biographics/lots_of_glyphs.pl
|
||||
share/examples/bioperl/biographics/render_sequence.pl
|
||||
share/examples/bioperl/bioperl.pl
|
||||
share/examples/bioperl/cluster/
|
||||
share/examples/bioperl/cluster/dbsnp.pl
|
||||
share/examples/bioperl/contributed/
|
||||
share/examples/bioperl/contributed/nmrpdb_parse.pl
|
||||
share/examples/bioperl/contributed/prosite2perl.pl
|
||||
share/examples/bioperl/contributed/rebase2list.pl
|
||||
share/examples/bioperl/db/
|
||||
share/examples/bioperl/db/dbfetch
|
||||
share/examples/bioperl/db/est_tissue_query.pl
|
||||
share/examples/bioperl/db/gb2features.pl
|
||||
share/examples/bioperl/db/getGenBank.pl
|
||||
share/examples/bioperl/db/get_seqs.pl
|
||||
share/examples/bioperl/db/rfetch.pl
|
||||
share/examples/bioperl/db/use_registry.pl
|
||||
share/examples/bioperl/generate_random_seq.pl
|
||||
share/examples/bioperl/liveseq/
|
||||
share/examples/bioperl/liveseq/change_gene.pl
|
||||
share/examples/bioperl/longorf.pl
|
||||
share/examples/bioperl/make_mrna_protein.pl
|
||||
share/examples/bioperl/make_primers.pl
|
||||
share/examples/bioperl/popgen/
|
||||
share/examples/bioperl/popgen/parse_calc_stats.pl
|
||||
share/examples/bioperl/rev_and_trans.pl
|
||||
share/examples/bioperl/revcom_dir.pl
|
||||
share/examples/bioperl/root/
|
||||
share/examples/bioperl/root/README
|
||||
share/examples/bioperl/root/exceptions1.pl
|
||||
share/examples/bioperl/root/exceptions2.pl
|
||||
share/examples/bioperl/root/exceptions3.pl
|
||||
share/examples/bioperl/root/exceptions4.pl
|
||||
share/examples/bioperl/root/lib/
|
||||
share/examples/bioperl/root/lib/Bio/
|
||||
share/examples/bioperl/root/lib/Bio/PrimarySeq.pm
|
||||
share/examples/bioperl/root/lib/Bio/PrimarySeqI.pm
|
||||
share/examples/bioperl/root/lib/Bio/Seq.pm
|
||||
share/examples/bioperl/root/lib/Bio/SeqI.pm
|
||||
share/examples/bioperl/root/lib/Error.pm
|
||||
share/examples/bioperl/root/lib/TestInterface.pm
|
||||
share/examples/bioperl/root/lib/TestObject.pm
|
||||
share/examples/bioperl/searchio/
|
||||
share/examples/bioperl/searchio/blast_example.pl
|
||||
share/examples/bioperl/searchio/custom_writer.pl
|
||||
share/examples/bioperl/searchio/hitwriter.pl
|
||||
share/examples/bioperl/searchio/hspwriter.pl
|
||||
share/examples/bioperl/searchio/htmlwriter.pl
|
||||
share/examples/bioperl/searchio/psiblast_features.pl
|
||||
share/examples/bioperl/searchio/psiblast_iterations.pl
|
||||
share/examples/bioperl/searchio/rawwriter.pl
|
||||
share/examples/bioperl/searchio/resultwriter.pl
|
||||
share/examples/bioperl/searchio/waba2gff.pl
|
||||
share/examples/bioperl/searchio/waba2gff3.pl
|
||||
share/examples/bioperl/sirna/
|
||||
share/examples/bioperl/sirna/TAG
|
||||
share/examples/bioperl/sirna/rnai_finder.cgi
|
||||
share/examples/bioperl/structure/
|
||||
share/examples/bioperl/structure/structure-io.pl
|
||||
share/examples/bioperl/subsequence.cgi
|
||||
share/examples/bioperl/tk/
|
||||
share/examples/bioperl/tk/gsequence.pl
|
||||
share/examples/bioperl/tk/hitdisplay.pl
|
||||
share/examples/bioperl/tools/
|
||||
share/examples/bioperl/tools/gb_to_gff.pl
|
||||
share/examples/bioperl/tools/gff2ps.pl
|
||||
share/examples/bioperl/tools/parse_codeml.pl
|
||||
share/examples/bioperl/tools/psw.pl
|
||||
share/examples/bioperl/tools/run_genscan.pl
|
||||
share/examples/bioperl/tools/seq_pattern.pl
|
||||
share/examples/bioperl/tools/standaloneblast.pl
|
||||
share/examples/bioperl/tree/
|
||||
share/examples/bioperl/tree/paup2phylip.pl
|
||||
|
||||
Loading…
Reference in New Issue
Block a user