head	1.6;
access;
symbols
	RELEASE_7_2_0:1.5
	RELEASE_7_1_0:1.3
	RELEASE_6_4_0:1.3
	RELEASE_5_EOL:1.3
	RELEASE_7_0_0:1.3
	RELEASE_6_3_0:1.3
	PRE_XORG_7:1.1
	RELEASE_4_EOL:1.1
	RELEASE_6_2_0:1.1;
locks; strict;
comment	@# @;


1.6
date	2009.06.05.20.38.34;	author miwi;	state dead;
branches;
next	1.5;

1.5
date	2009.03.19.19.29.34;	author miwi;	state Exp;
branches;
next	1.4;

1.4
date	2008.12.16.16.13.11;	author wxs;	state Exp;
branches;
next	1.3;

1.3
date	2007.09.08.00.53.11;	author linimon;	state Exp;
branches;
next	1.2;

1.2
date	2007.05.19.20.00.26;	author flz;	state Exp;
branches;
next	1.1;

1.1
date	2006.05.02.21.31.43;	author garga;	state Exp;
branches;
next	;


desc
@@


1.6
log
@2009-05-31 biology/p5-bioperl-devel: no longer under development
2009-05-31 biology/p5-bioperl-run-devel: no longer under development
2009-06-01 net-p2p/deluge05: use net-p2p/deluge instead
2009-06-03 textproc/gmat: failed to build for a long time, no maintainer and apparently no users either
@
text
@# New ports collection makefile for:	p5-bioperl-run-devel
# Date created:		21 February 2006
# Whom:	      		Mauricio Herrera Cuadra <mauricio@@arareko.net>
#
# $FreeBSD: ports/biology/p5-bioperl-run-devel/Makefile,v 1.5 2009/03/19 19:29:34 miwi Exp $
#

PORTNAME=	bioperl-run
PORTVERSION=	1.5.1
PORTREVISION=	1
CATEGORIES=	biology perl5
MASTER_SITES=	http://bioperl.org/DIST/
PKGNAMEPREFIX=	p5-

MAINTAINER=	mauricio@@arareko.net
COMMENT=	Wrapper modules for common bioinformatics tools (developer release)

BUILD_DEPENDS=	p5-bioperl=1.5.1_1:${PORTSDIR}/biology/p5-bioperl-devel \
		${SITE_PERL}/Algorithm/Diff.pm:${PORTSDIR}/devel/p5-Algorithm-Diff
RUN_DEPENDS=	${BUILD_DEPENDS}

BROKEN=		this port needs dependency update to p5-bioperl=1.5.2 and Build.PL mechanism

CONFLICTS=	p5-bioperl-run-1.[02468]*

LATEST_LINK=	p5-bioperl-run-devel

DEPRECATED=	no longer under development
EXPIRATION_DATE=	2009-05-31

PERL_CONFIGURE=	YES

MAN3=		Bio::Factory::EMBOSS.3 \
		Bio::Installer::Clustalw.3 \
		Bio::Installer::EMBOSS.3 \
		Bio::Installer::Generic.3 \
		Bio::Installer::PAML.3 \
		Bio::Installer::Probcons.3 \
		Bio::Installer::TCoffee.3 \
		Bio::Tools::Run::AbstractRunner.3 \
		Bio::Tools::Run::Alignment::Blat.3 \
		Bio::Tools::Run::Alignment::Clustalw.3 \
		Bio::Tools::Run::Alignment::DBA.3 \
		Bio::Tools::Run::Alignment::Exonerate.3 \
		Bio::Tools::Run::Alignment::Lagan.3 \
		Bio::Tools::Run::Alignment::MAFFT.3 \
		Bio::Tools::Run::Alignment::Muscle.3 \
		Bio::Tools::Run::Alignment::Probcons.3 \
		Bio::Tools::Run::Alignment::Sim4.3 \
		Bio::Tools::Run::Alignment::StandAloneFasta.3 \
		Bio::Tools::Run::Alignment::TCoffee.3 \
		Bio::Tools::Run::Analysis.3 \
		Bio::Tools::Run::Analysis::soap.3 \
		Bio::Tools::Run::AnalysisFactory.3 \
		Bio::Tools::Run::AnalysisFactory::Pise.3 \
		Bio::Tools::Run::AnalysisFactory::soap.3 \
		Bio::Tools::Run::Coil.3 \
		Bio::Tools::Run::EMBOSSApplication.3 \
		Bio::Tools::Run::EMBOSSacd.3 \
		Bio::Tools::Run::Eponine.3 \
		Bio::Tools::Run::FootPrinter.3 \
		Bio::Tools::Run::Genewise.3 \
		Bio::Tools::Run::Genscan.3 \
		Bio::Tools::Run::Hmmer.3 \
		Bio::Tools::Run::JavaRunner.3 \
		Bio::Tools::Run::Mdust.3 \
		Bio::Tools::Run::Phrap.3 \
		Bio::Tools::Run::Phylo::Forester::SDI.3 \
		Bio::Tools::Run::Phylo::LVB.3 \
		Bio::Tools::Run::Phylo::Molphy::ProtML.3 \
		Bio::Tools::Run::Phylo::PAML::Baseml.3 \
		Bio::Tools::Run::Phylo::PAML::Codeml.3 \
		Bio::Tools::Run::Phylo::PAML::Yn00.3 \
		Bio::Tools::Run::Phylo::Phylip::Base.3 \
		Bio::Tools::Run::Phylo::Phylip::Consense.3 \
		Bio::Tools::Run::Phylo::Phylip::DrawGram.3 \
		Bio::Tools::Run::Phylo::Phylip::DrawTree.3 \
		Bio::Tools::Run::Phylo::Phylip::Neighbor.3 \
		Bio::Tools::Run::Phylo::Phylip::PhylipConf.3 \
		Bio::Tools::Run::Phylo::Phylip::ProtDist.3 \
		Bio::Tools::Run::Phylo::Phylip::ProtPars.3 \
		Bio::Tools::Run::Phylo::Phylip::SeqBoot.3 \
		Bio::Tools::Run::PiseApplication.3 \
		Bio::Tools::Run::PiseApplication::CSR.3 \
		Bio::Tools::Run::PiseApplication::Puzzle.3 \
		Bio::Tools::Run::PiseApplication::abiview.3 \
		Bio::Tools::Run::PiseApplication::addquart.3 \
		Bio::Tools::Run::PiseApplication::align2model.3 \
		Bio::Tools::Run::PiseApplication::alistat.3 \
		Bio::Tools::Run::PiseApplication::antigenic.3 \
		Bio::Tools::Run::PiseApplication::assp.3 \
		Bio::Tools::Run::PiseApplication::backtranseq.3 \
		Bio::Tools::Run::PiseApplication::bambe.3 \
		Bio::Tools::Run::PiseApplication::banana.3 \
		Bio::Tools::Run::PiseApplication::bionj.3 \
		Bio::Tools::Run::PiseApplication::biosed.3 \
		Bio::Tools::Run::PiseApplication::bl2seq.3 \
		Bio::Tools::Run::PiseApplication::blast2.3 \
		Bio::Tools::Run::PiseApplication::blimps.3 \
		Bio::Tools::Run::PiseApplication::blimps_block.3 \
		Bio::Tools::Run::PiseApplication::blimps_matrix.3 \
		Bio::Tools::Run::PiseApplication::boxshade.3 \
		Bio::Tools::Run::PiseApplication::btwisted.3 \
		Bio::Tools::Run::PiseApplication::cai.3 \
		Bio::Tools::Run::PiseApplication::cap.3 \
		Bio::Tools::Run::PiseApplication::cds.3 \
		Bio::Tools::Run::PiseApplication::chaos.3 \
		Bio::Tools::Run::PiseApplication::charge.3 \
		Bio::Tools::Run::PiseApplication::checktrans.3 \
		Bio::Tools::Run::PiseApplication::chips.3 \
		Bio::Tools::Run::PiseApplication::cirdna.3 \
		Bio::Tools::Run::PiseApplication::clique.3 \
		Bio::Tools::Run::PiseApplication::clustalw.3 \
		Bio::Tools::Run::PiseApplication::clustalw_convert.3 \
		Bio::Tools::Run::PiseApplication::codcmp.3 \
		Bio::Tools::Run::PiseApplication::coderet.3 \
		Bio::Tools::Run::PiseApplication::codnocod.3 \
		Bio::Tools::Run::PiseApplication::codontree.3 \
		Bio::Tools::Run::PiseApplication::codonw.3 \
		Bio::Tools::Run::PiseApplication::comalign.3 \
		Bio::Tools::Run::PiseApplication::combat.3 \
		Bio::Tools::Run::PiseApplication::compseq.3 \
		Bio::Tools::Run::PiseApplication::con_filter.3 \
		Bio::Tools::Run::PiseApplication::confmat.3 \
		Bio::Tools::Run::PiseApplication::cons.3 \
		Bio::Tools::Run::PiseApplication::consense.3 \
		Bio::Tools::Run::PiseApplication::consensus.3 \
		Bio::Tools::Run::PiseApplication::cpgplot.3 \
		Bio::Tools::Run::PiseApplication::cpgreport.3 \
		Bio::Tools::Run::PiseApplication::cusp.3 \
		Bio::Tools::Run::PiseApplication::cutseq.3 \
		Bio::Tools::Run::PiseApplication::dan.3 \
		Bio::Tools::Run::PiseApplication::dca.3 \
		Bio::Tools::Run::PiseApplication::decorate.3 \
		Bio::Tools::Run::PiseApplication::degapseq.3 \
		Bio::Tools::Run::PiseApplication::descseq.3 \
		Bio::Tools::Run::PiseApplication::dialign2.3 \
		Bio::Tools::Run::PiseApplication::diffseq.3 \
		Bio::Tools::Run::PiseApplication::digest.3 \
		Bio::Tools::Run::PiseApplication::distmat.3 \
		Bio::Tools::Run::PiseApplication::distquart.3 \
		Bio::Tools::Run::PiseApplication::dnadist.3 \
		Bio::Tools::Run::PiseApplication::dnapars.3 \
		Bio::Tools::Run::PiseApplication::dollop.3 \
		Bio::Tools::Run::PiseApplication::domainer.3 \
		Bio::Tools::Run::PiseApplication::dotmatcher.3 \
		Bio::Tools::Run::PiseApplication::dotpath.3 \
		Bio::Tools::Run::PiseApplication::dottup.3 \
		Bio::Tools::Run::PiseApplication::drawgram.3 \
		Bio::Tools::Run::PiseApplication::drawpyr.3 \
		Bio::Tools::Run::PiseApplication::drawtree.3 \
		Bio::Tools::Run::PiseApplication::dreg.3 \
		Bio::Tools::Run::PiseApplication::druid.3 \
		Bio::Tools::Run::PiseApplication::dsc.3 \
		Bio::Tools::Run::PiseApplication::dssp.3 \
		Bio::Tools::Run::PiseApplication::einverted.3 \
		Bio::Tools::Run::PiseApplication::emma.3 \
		Bio::Tools::Run::PiseApplication::emowse.3 \
		Bio::Tools::Run::PiseApplication::environ.3 \
		Bio::Tools::Run::PiseApplication::eprimer3.3 \
		Bio::Tools::Run::PiseApplication::equicktandem.3 \
		Bio::Tools::Run::PiseApplication::est2genome.3 \
		Bio::Tools::Run::PiseApplication::etandem.3 \
		Bio::Tools::Run::PiseApplication::extractfeat.3 \
		Bio::Tools::Run::PiseApplication::extractseq.3 \
		Bio::Tools::Run::PiseApplication::fasta.3 \
		Bio::Tools::Run::PiseApplication::fastdnaml.3 \
		Bio::Tools::Run::PiseApplication::fastrna.3 \
		Bio::Tools::Run::PiseApplication::filtersites.3 \
		Bio::Tools::Run::PiseApplication::findkm.3 \
		Bio::Tools::Run::PiseApplication::fitch.3 \
		Bio::Tools::Run::PiseApplication::fmtseq.3 \
		Bio::Tools::Run::PiseApplication::freak.3 \
		Bio::Tools::Run::PiseApplication::fuzznuc.3 \
		Bio::Tools::Run::PiseApplication::fuzzpro.3 \
		Bio::Tools::Run::PiseApplication::fuzztran.3 \
		Bio::Tools::Run::PiseApplication::gb2xml.3 \
		Bio::Tools::Run::PiseApplication::geecee.3 \
		Bio::Tools::Run::PiseApplication::genscan.3 \
		Bio::Tools::Run::PiseApplication::getblock.3 \
		Bio::Tools::Run::PiseApplication::getorf.3 \
		Bio::Tools::Run::PiseApplication::gff2ps.3 \
		Bio::Tools::Run::PiseApplication::gibbs.3 \
		Bio::Tools::Run::PiseApplication::gibbs_scan.3 \
		Bio::Tools::Run::PiseApplication::golden.3 \
		Bio::Tools::Run::PiseApplication::grailclnt.3 \
		Bio::Tools::Run::PiseApplication::gruppi.3 \
		Bio::Tools::Run::PiseApplication::helixturnhelix.3 \
		Bio::Tools::Run::PiseApplication::hmmalign.3 \
		Bio::Tools::Run::PiseApplication::hmmbuild.3 \
		Bio::Tools::Run::PiseApplication::hmmcalibrate.3 \
		Bio::Tools::Run::PiseApplication::hmmconvert.3 \
		Bio::Tools::Run::PiseApplication::hmmemit.3 \
		Bio::Tools::Run::PiseApplication::hmmer2sam.3 \
		Bio::Tools::Run::PiseApplication::hmmfetch.3 \
		Bio::Tools::Run::PiseApplication::hmmpfam.3 \
		Bio::Tools::Run::PiseApplication::hmmscore.3 \
		Bio::Tools::Run::PiseApplication::hmmsearch.3 \
		Bio::Tools::Run::PiseApplication::hmoment.3 \
		Bio::Tools::Run::PiseApplication::homology.3 \
		Bio::Tools::Run::PiseApplication::html4blast.3 \
		Bio::Tools::Run::PiseApplication::iep.3 \
		Bio::Tools::Run::PiseApplication::infoalign.3 \
		Bio::Tools::Run::PiseApplication::infoseq.3 \
		Bio::Tools::Run::PiseApplication::interface.3 \
		Bio::Tools::Run::PiseApplication::isochore.3 \
		Bio::Tools::Run::PiseApplication::kitsch.3 \
		Bio::Tools::Run::PiseApplication::lassap.3 \
		Bio::Tools::Run::PiseApplication::lindna.3 \
		Bio::Tools::Run::PiseApplication::listor.3 \
		Bio::Tools::Run::PiseApplication::loadseq.3 \
		Bio::Tools::Run::PiseApplication::lvb.3 \
		Bio::Tools::Run::PiseApplication::makehist.3 \
		Bio::Tools::Run::PiseApplication::map.3 \
		Bio::Tools::Run::PiseApplication::marscan.3 \
		Bio::Tools::Run::PiseApplication::maskfeat.3 \
		Bio::Tools::Run::PiseApplication::maskseq.3 \
		Bio::Tools::Run::PiseApplication::matcher.3 \
		Bio::Tools::Run::PiseApplication::megamerger.3 \
		Bio::Tools::Run::PiseApplication::melting.3 \
		Bio::Tools::Run::PiseApplication::merger.3 \
		Bio::Tools::Run::PiseApplication::mfold.3 \
		Bio::Tools::Run::PiseApplication::mix.3 \
		Bio::Tools::Run::PiseApplication::modelfromalign.3 \
		Bio::Tools::Run::PiseApplication::most.3 \
		Bio::Tools::Run::PiseApplication::mreps.3 \
		Bio::Tools::Run::PiseApplication::msa.3 \
		Bio::Tools::Run::PiseApplication::msbar.3 \
		Bio::Tools::Run::PiseApplication::mspcrunch.3 \
		Bio::Tools::Run::PiseApplication::mview_alig.3 \
		Bio::Tools::Run::PiseApplication::mview_blast.3 \
		Bio::Tools::Run::PiseApplication::mwfilter.3 \
		Bio::Tools::Run::PiseApplication::needle.3 \
		Bio::Tools::Run::PiseApplication::neighbor.3 \
		Bio::Tools::Run::PiseApplication::newcpgreport.3 \
		Bio::Tools::Run::PiseApplication::newcpgseek.3 \
		Bio::Tools::Run::PiseApplication::newseq.3 \
		Bio::Tools::Run::PiseApplication::njdist.3 \
		Bio::Tools::Run::PiseApplication::nnssp.3 \
		Bio::Tools::Run::PiseApplication::notseq.3 \
		Bio::Tools::Run::PiseApplication::nrscope.3 \
		Bio::Tools::Run::PiseApplication::nthseq.3 \
		Bio::Tools::Run::PiseApplication::octanol.3 \
		Bio::Tools::Run::PiseApplication::oddcomp.3 \
		Bio::Tools::Run::PiseApplication::palindrome.3 \
		Bio::Tools::Run::PiseApplication::pam.3 \
		Bio::Tools::Run::PiseApplication::parciquart.3 \
		Bio::Tools::Run::PiseApplication::pars.3 \
		Bio::Tools::Run::PiseApplication::pasteseq.3 \
		Bio::Tools::Run::PiseApplication::patmatdb.3 \
		Bio::Tools::Run::PiseApplication::patmatmotifs.3 \
		Bio::Tools::Run::PiseApplication::patser.3 \
		Bio::Tools::Run::PiseApplication::pdbsearch.3 \
		Bio::Tools::Run::PiseApplication::pepcoil.3 \
		Bio::Tools::Run::PiseApplication::pepinfo.3 \
		Bio::Tools::Run::PiseApplication::pepnet.3 \
		Bio::Tools::Run::PiseApplication::pepstats.3 \
		Bio::Tools::Run::PiseApplication::pepwheel.3 \
		Bio::Tools::Run::PiseApplication::pepwindow.3 \
		Bio::Tools::Run::PiseApplication::pepwindowall.3 \
		Bio::Tools::Run::PiseApplication::pestfind.3 \
		Bio::Tools::Run::PiseApplication::pftools.3 \
		Bio::Tools::Run::PiseApplication::phiblast.3 \
		Bio::Tools::Run::PiseApplication::pima.3 \
		Bio::Tools::Run::PiseApplication::plotcon.3 \
		Bio::Tools::Run::PiseApplication::plotorf.3 \
		Bio::Tools::Run::PiseApplication::plsearch.3 \
		Bio::Tools::Run::PiseApplication::polydot.3 \
		Bio::Tools::Run::PiseApplication::pratt.3 \
		Bio::Tools::Run::PiseApplication::predator.3 \
		Bio::Tools::Run::PiseApplication::preg.3 \
		Bio::Tools::Run::PiseApplication::prettyalign.3 \
		Bio::Tools::Run::PiseApplication::prettyplot.3 \
		Bio::Tools::Run::PiseApplication::prettyseq.3 \
		Bio::Tools::Run::PiseApplication::primersearch.3 \
		Bio::Tools::Run::PiseApplication::primo.3 \
		Bio::Tools::Run::PiseApplication::prodom.3 \
		Bio::Tools::Run::PiseApplication::profit.3 \
		Bio::Tools::Run::PiseApplication::prophecy.3 \
		Bio::Tools::Run::PiseApplication::prophet.3 \
		Bio::Tools::Run::PiseApplication::prose.3 \
		Bio::Tools::Run::PiseApplication::prot_nucml.3 \
		Bio::Tools::Run::PiseApplication::protal2dna.3 \
		Bio::Tools::Run::PiseApplication::protdist.3 \
		Bio::Tools::Run::PiseApplication::protpars.3 \
		Bio::Tools::Run::PiseApplication::pscan.3 \
		Bio::Tools::Run::PiseApplication::psiblast.3 \
		Bio::Tools::Run::PiseApplication::psort2.3 \
		Bio::Tools::Run::PiseApplication::pyramids.3 \
		Bio::Tools::Run::PiseApplication::pyreval.3 \
		Bio::Tools::Run::PiseApplication::qstar.3 \
		Bio::Tools::Run::PiseApplication::quicktree.3 \
		Bio::Tools::Run::PiseApplication::readnexus.3 \
		Bio::Tools::Run::PiseApplication::readseq.3 \
		Bio::Tools::Run::PiseApplication::recoder.3 \
		Bio::Tools::Run::PiseApplication::redata.3 \
		Bio::Tools::Run::PiseApplication::remap.3 \
		Bio::Tools::Run::PiseApplication::repeats.3 \
		Bio::Tools::Run::PiseApplication::restover.3 \
		Bio::Tools::Run::PiseApplication::restrict.3 \
		Bio::Tools::Run::PiseApplication::revseq.3 \
		Bio::Tools::Run::PiseApplication::rnadistance.3 \
		Bio::Tools::Run::PiseApplication::rnaeval.3 \
		Bio::Tools::Run::PiseApplication::rnafold.3 \
		Bio::Tools::Run::PiseApplication::rnaga.3 \
		Bio::Tools::Run::PiseApplication::rnaheat.3 \
		Bio::Tools::Run::PiseApplication::rnainverse.3 \
		Bio::Tools::Run::PiseApplication::rnapdist.3 \
		Bio::Tools::Run::PiseApplication::rnasubopt.3 \
		Bio::Tools::Run::PiseApplication::sam2hmmer.3 \
		Bio::Tools::Run::PiseApplication::sampleseqs.3 \
		Bio::Tools::Run::PiseApplication::saps.3 \
		Bio::Tools::Run::PiseApplication::satellites.3 \
		Bio::Tools::Run::PiseApplication::scan_for_matches.3 \
		Bio::Tools::Run::PiseApplication::scope.3 \
		Bio::Tools::Run::PiseApplication::scopparse.3 \
		Bio::Tools::Run::PiseApplication::seqboot.3 \
		Bio::Tools::Run::PiseApplication::seqgen.3 \
		Bio::Tools::Run::PiseApplication::seqmatchall.3 \
		Bio::Tools::Run::PiseApplication::seqsblast.3 \
		Bio::Tools::Run::PiseApplication::seqstat.3 \
		Bio::Tools::Run::PiseApplication::showalign.3 \
		Bio::Tools::Run::PiseApplication::showfeat.3 \
		Bio::Tools::Run::PiseApplication::showorf.3 \
		Bio::Tools::Run::PiseApplication::showseq.3 \
		Bio::Tools::Run::PiseApplication::shuffleseq.3 \
		Bio::Tools::Run::PiseApplication::sigcleave.3 \
		Bio::Tools::Run::PiseApplication::siggen.3 \
		Bio::Tools::Run::PiseApplication::sigscan.3 \
		Bio::Tools::Run::PiseApplication::silent.3 \
		Bio::Tools::Run::PiseApplication::sirna.3 \
		Bio::Tools::Run::PiseApplication::splitter.3 \
		Bio::Tools::Run::PiseApplication::sreformat.3 \
		Bio::Tools::Run::PiseApplication::stretcher.3 \
		Bio::Tools::Run::PiseApplication::stride.3 \
		Bio::Tools::Run::PiseApplication::stssearch.3 \
		Bio::Tools::Run::PiseApplication::supermatcher.3 \
		Bio::Tools::Run::PiseApplication::syco.3 \
		Bio::Tools::Run::PiseApplication::tacg.3 \
		Bio::Tools::Run::PiseApplication::tfscan.3 \
		Bio::Tools::Run::PiseApplication::tipdate.3 \
		Bio::Tools::Run::PiseApplication::tmap.3 \
		Bio::Tools::Run::PiseApplication::toppred.3 \
		Bio::Tools::Run::PiseApplication::tranalign.3 \
		Bio::Tools::Run::PiseApplication::transeq.3 \
		Bio::Tools::Run::PiseApplication::treealign.3 \
		Bio::Tools::Run::PiseApplication::trimest.3 \
		Bio::Tools::Run::PiseApplication::trimseq.3 \
		Bio::Tools::Run::PiseApplication::trnascan.3 \
		Bio::Tools::Run::PiseApplication::twofeat.3 \
		Bio::Tools::Run::PiseApplication::unroot.3 \
		Bio::Tools::Run::PiseApplication::vectorstrip.3 \
		Bio::Tools::Run::PiseApplication::water.3 \
		Bio::Tools::Run::PiseApplication::weighbor.3 \
		Bio::Tools::Run::PiseApplication::whichdb.3 \
		Bio::Tools::Run::PiseApplication::wise2.3 \
		Bio::Tools::Run::PiseApplication::wobble.3 \
		Bio::Tools::Run::PiseApplication::wordcount.3 \
		Bio::Tools::Run::PiseApplication::wordmatch.3 \
		Bio::Tools::Run::PiseApplication::wublast2.3 \
		Bio::Tools::Run::PiseApplication::xblast.3 \
		Bio::Tools::Run::PiseApplication::xpound.3 \
		Bio::Tools::Run::PiseJob.3 \
		Bio::Tools::Run::PiseJobParser.3 \
		Bio::Tools::Run::PiseWorkflow.3 \
		Bio::Tools::Run::Primate.3 \
		Bio::Tools::Run::Primer3.3 \
		Bio::Tools::Run::Prints.3 \
		Bio::Tools::Run::Profile.3 \
		Bio::Tools::Run::Promoterwise.3 \
		Bio::Tools::Run::Pseudowise.3 \
		Bio::Tools::Run::RepeatMasker.3 \
		Bio::Tools::Run::Seg.3 \
		Bio::Tools::Run::Signalp.3 \
		Bio::Tools::Run::Tmhmm.3 \
		Bio::Tools::Run::TribeMCL.3 \
		Bio::Tools::Run::Vista.3

# now install all extra stuff (docs, examples, scripts)
post-install:
	${MKDIR} ${DATADIR}
	@@${CP} -Rv ${WRKSRC}/scripts ${DATADIR}
	${MKDIR} ${EXAMPLESDIR}
	@@${CP} -Rv ${WRKSRC}/examples/* ${EXAMPLESDIR}
.if !defined(NOPORTDOCS)
	${MKDIR} ${DOCSDIR}
.for doc in AUTHORS Changes INSTALL.PROGRAMS README
	${INSTALL_DATA} ${WRKSRC}/${doc} ${DOCSDIR}
.endfor
.endif

.include <bsd.port.mk>
@


1.5
log
@- Mark DEPRECATED (no longer under development)

PR:		132122
Submitted by:	Mauricio Herrera Cuadra <mauricio@@arareko.net> (maintainer)
@
text
@d5 1
a5 1
# $FreeBSD$
@


1.4
log
@- Mark as broken

PR:		ports/129597
Submitted by:	Mauricio Herrera Cuadra <mauricio@@arareko.net> (maintainer)
@
text
@d28 3
@


1.3
log
@Welcome bsd.perl.mk.  Add support for constructs such as USE_PERL5=5.8.0+.
Drop support for antique perl.

Work done by:	gabor
Sponsored by:	Google Summer of Code 2007
Hat:		portmgr
@
text
@d22 2
@


1.2
log
@- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}.
@
text
@a373 6
.include <bsd.port.pre.mk>

.if ${PERL_LEVEL} < 500600
IGNORE=		requires Perl 5.6 or better
.endif

d387 1
a387 1
.include <bsd.port.post.mk>
@


1.1
log
@Bioperl-run contain modules that provides a PERL interface to various
bioinformatics applications. This allows various applications to be used
with common Bioperl objects.

WWW: http://bioperl.org/

PR:		ports/93675
Submitted by:	Mauricio Herrera Cuadra <mauricio@@arareko.net>
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d18 1
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BUILD_DEPENDS=	p5-bioperl=1.5.1:${PORTSDIR}/biology/p5-bioperl-devel \
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