head	1.37;
access;
symbols
	RELEASE_8_3_0:1.30
	RELEASE_9_0_0:1.29
	RELEASE_7_4_0:1.22
	RELEASE_8_2_0:1.22
	RELEASE_6_EOL:1.19
	RELEASE_8_1_0:1.14
	RELEASE_7_3_0:1.12
	RELEASE_8_0_0:1.10
	RELEASE_7_2_0:1.9
	RELEASE_7_1_0:1.9
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	RELEASE_5_EOL:1.9
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	RELEASE_6_2_0:1.2;
locks; strict;
comment	@# @;


1.37
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1.36
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desc
@@


1.37
log
@## SVN ## Exported commit - http://svnweb.freebsd.org/changeset/base/312356
## SVN ## CVS IS DEPRECATED: http://wiki.freebsd.org/CvsIsDeprecated
@
text
@# Created by: Aaron Dalton <aaron@@FreeBSD.org>
# $FreeBSD: head/biology/p5-Bio-Phylo/Makefile 312356 2013-02-16 14:58:51Z culot $

PORTNAME=	Bio-Phylo
PORTVERSION=	0.52
CATEGORIES=	biology perl5
MASTER_SITES=	CPAN
PKGNAMEPREFIX=	p5-

MAINTAINER=	perl@@FreeBSD.org
COMMENT=	Phylogenetic analysis using Perl

LICENSE=	ART10 GPLv1
LICENSE_COMB=	dual

BUILD_DEPENDS=	p5-GD>=0:${PORTSDIR}/graphics/p5-GD \
		p5-Math-CDF>=0:${PORTSDIR}/math/p5-Math-CDF \
		p5-Math-Random>=0:${PORTSDIR}/math/p5-Math-Random \
		p5-PDF-API2>=0:${PORTSDIR}/textproc/p5-PDF-API2 \
		p5-SVG>=0:${PORTSDIR}/textproc/p5-SVG \
		p5-SWF-Builder>=0:${PORTSDIR}/graphics/p5-SWF-Builder \
		p5-XML-LibXML>=0:${PORTSDIR}/textproc/p5-XML-LibXML \
		p5-XML-Twig>=0:${PORTSDIR}/textproc/p5-XML-Twig \
		p5-XML-XML2JSON>=0:${PORTSDIR}/textproc/p5-XML-XML2JSON \
		p5-bioperl>=0:${PORTSDIR}/biology/p5-bioperl \
		p5-libxml>=0:${PORTSDIR}/textproc/p5-libxml
RUN_DEPENDS:=	${BUILD_DEPENDS}
TEST_DEPENDS=	p5-JSON>=0:${PORTSDIR}/converters/p5-JSON

PERL_CONFIGURE=	yes

MAN3=		Bio::Phylo.3 \
		Bio::Phylo::EvolutionaryModels.3 \
		Bio::Phylo::Factory.3 \
		Bio::Phylo::Forest.3 \
		Bio::Phylo::Forest::DrawNode.3 \
		Bio::Phylo::Forest::DrawTree.3 \
		Bio::Phylo::Forest::Node.3 \
		Bio::Phylo::Forest::NodeRole.3 \
		Bio::Phylo::Forest::Tree.3 \
		Bio::Phylo::Forest::TreeRole.3 \
		Bio::Phylo::Generator.3 \
		Bio::Phylo::IO.3 \
		Bio::Phylo::Identifiable.3 \
		Bio::Phylo::Listable.3 \
		Bio::Phylo::ListableRole.3 \
		Bio::Phylo::Manual.3 \
		Bio::Phylo::Matrices.3 \
		Bio::Phylo::Matrices::Character.3 \
		Bio::Phylo::Matrices::Characters.3 \
		Bio::Phylo::Matrices::Datatype.3 \
		Bio::Phylo::Matrices::Datatype::Continuous.3 \
		Bio::Phylo::Matrices::Datatype::Custom.3 \
		Bio::Phylo::Matrices::Datatype::Dna.3 \
		Bio::Phylo::Matrices::Datatype::Mixed.3 \
		Bio::Phylo::Matrices::Datatype::Protein.3 \
		Bio::Phylo::Matrices::Datatype::Restriction.3 \
		Bio::Phylo::Matrices::Datatype::Rna.3 \
		Bio::Phylo::Matrices::Datatype::Standard.3 \
		Bio::Phylo::Matrices::Datum.3 \
		Bio::Phylo::Matrices::DatumRole.3 \
		Bio::Phylo::Matrices::Matrix.3 \
		Bio::Phylo::Matrices::MatrixRole.3 \
		Bio::Phylo::Matrices::TypeSafeData.3 \
		Bio::Phylo::Mediators::TaxaMediator.3 \
		Bio::Phylo::NeXML::DOM.3 \
		Bio::Phylo::NeXML::DOM::Document.3 \
		Bio::Phylo::NeXML::DOM::Document::Libxml.3 \
		Bio::Phylo::NeXML::DOM::Document::Twig.3 \
		Bio::Phylo::NeXML::DOM::Element.3 \
		Bio::Phylo::NeXML::DOM::Element::Libxml.3 \
		Bio::Phylo::NeXML::DOM::Element::Twig.3 \
		Bio::Phylo::NeXML::Entities.3 \
		Bio::Phylo::NeXML::Meta.3 \
		Bio::Phylo::NeXML::Meta::XMLLiteral.3 \
		Bio::Phylo::NeXML::Writable.3 \
		Bio::Phylo::Parsers::Abstract.3 \
		Bio::Phylo::Parsers::Adjacency.3 \
		Bio::Phylo::Parsers::Fasta.3 \
		Bio::Phylo::Parsers::Figtree.3 \
		Bio::Phylo::Parsers::Json.3 \
		Bio::Phylo::Parsers::Newick.3 \
		Bio::Phylo::Parsers::Nexml.3 \
		Bio::Phylo::Parsers::Nexus.3 \
		Bio::Phylo::Parsers::Phylip.3 \
		Bio::Phylo::Parsers::Phyloxml.3 \
		Bio::Phylo::Parsers::Table.3 \
		Bio::Phylo::Parsers::Taxlist.3 \
		Bio::Phylo::Parsers::Tnrs.3 \
		Bio::Phylo::Parsers::Tolweb.3 \
		Bio::Phylo::Parsers::Ubiocbmeta.3 \
		Bio::Phylo::Parsers::Ubiometa.3 \
		Bio::Phylo::Parsers::Ubiosearch.3 \
		Bio::Phylo::PhyloWS.3 \
		Bio::Phylo::PhyloWS::Client.3 \
		Bio::Phylo::PhyloWS::Resource.3 \
		Bio::Phylo::PhyloWS::Resource::Description.3 \
		Bio::Phylo::PhyloWS::Service.3 \
		Bio::Phylo::PhyloWS::Service::Timetree.3 \
		Bio::Phylo::PhyloWS::Service::Tolweb.3 \
		Bio::Phylo::PhyloWS::Service::UbioClassificationBank.3 \
		Bio::Phylo::PhyloWS::Service::UbioNameBank.3 \
		Bio::Phylo::Project.3 \
		Bio::Phylo::Set.3 \
		Bio::Phylo::Taxa.3 \
		Bio::Phylo::Taxa::TaxaLinker.3 \
		Bio::Phylo::Taxa::Taxon.3 \
		Bio::Phylo::Taxa::TaxonLinker.3 \
		Bio::Phylo::Treedrawer.3 \
		Bio::Phylo::Treedrawer::Abstract.3 \
		Bio::Phylo::Treedrawer::Canvas.3 \
		Bio::Phylo::Treedrawer::Gif.3 \
		Bio::Phylo::Treedrawer::Jpeg.3 \
		Bio::Phylo::Treedrawer::Pdf.3 \
		Bio::Phylo::Treedrawer::Png.3 \
		Bio::Phylo::Treedrawer::Processing.3 \
		Bio::Phylo::Treedrawer::Svg.3 \
		Bio::Phylo::Treedrawer::Swf.3 \
		Bio::Phylo::Unparsers::Abstract.3 \
		Bio::Phylo::Unparsers::Adjacency.3 \
		Bio::Phylo::Unparsers::Cdao.3 \
		Bio::Phylo::Unparsers::Fasta.3 \
		Bio::Phylo::Unparsers::Hennig86.3 \
		Bio::Phylo::Unparsers::Html.3 \
		Bio::Phylo::Unparsers::Json.3 \
		Bio::Phylo::Unparsers::Mrp.3 \
		Bio::Phylo::Unparsers::Newick.3 \
		Bio::Phylo::Unparsers::Nexml.3 \
		Bio::Phylo::Unparsers::Nexus.3 \
		Bio::Phylo::Unparsers::Pagel.3 \
		Bio::Phylo::Unparsers::Phylip.3 \
		Bio::Phylo::Unparsers::Phyloxml.3 \
		Bio::Phylo::Unparsers::Rss1.3 \
		Bio::Phylo::Unparsers::Taxlist.3 \
		Bio::Phylo::Util::CONSTANT.3 \
		Bio::Phylo::Util::Dependency.3 \
		Bio::Phylo::Util::Exceptions.3 \
		Bio::Phylo::Util::IDPool.3 \
		Bio::Phylo::Util::Logger.3 \
		Bio::Phylo::Util::OptionalInterface.3 \
		Bio::Phylo::Util::StackTrace.3 \
		Bio::PhyloRole.3

post-patch:
	@@${REINPLACE_CMD} -e '/NAME/ s|Bio-Phylo|Bio::Phylo|' ${WRKSRC}/Makefile.PL

.include <bsd.port.mk>
@


1.36
log
@Switch exporter over
@
text
@d1 2
a2 6
# New ports collection makefile for:	Bio-Phylo
# Date created:				12 Mar 2006
# Whom:					Aaron Dalton <aaron@@FreeBSD.org>
#
# $FreeBSD: head/biology/p5-Bio-Phylo/Makefile 300895 2012-07-14 12:56:14Z beat $
#
d5 1
a5 1
PORTVERSION=	0.50
d11 1
a11 1
COMMENT=	Phylogenetic analysis using perl
d39 1
d41 1
d46 1
d61 1
d63 1
d80 1
d141 2
a142 1
		Bio::Phylo::Util::StackTrace.3
@


1.35
log
@- Update to 0.50
- Add TEST_DEPENDS
- Sort PLIST
@
text
@d5 1
a5 1
# $FreeBSD$
@


1.34
log
@- Update to 0.49
@
text
@d9 1
a9 1
PORTVERSION=	0.49
d32 1
d77 1
d87 1
d118 1
d122 1
d132 1
d141 3
@


1.33
log
@- update png to 1.5.10
@
text
@d9 1
a9 2
PORTVERSION=	0.48
PORTREVISION=	1
@


1.32
log
@- Update to 0.48
- Add BUILD_DEPENDS
@
text
@d10 1
@


1.31
log
@- Update to 0.47
@
text
@d9 1
a9 1
PORTVERSION=	0.47
a11 1
MASTER_SITE_SUBDIR=	CPAN:RVOSA
d20 1
a20 1
RUN_DEPENDS=	p5-GD>=0:${PORTSDIR}/graphics/p5-GD \
d31 1
@


1.30
log
@- Update to 0.46
@
text
@d9 1
a9 1
PORTVERSION=	0.46
@


1.29
log
@- Update to 0.45
@
text
@d9 1
a9 1
PORTVERSION=	0.45
@


1.28
log
@- Update to 0.43
@
text
@d9 1
a9 1
PORTVERSION=	0.43
@


1.27
log
@- Update to 0.40
- Add LICENSE (Artistic 1 & GPLv1)
@
text
@d9 1
a9 1
PORTVERSION=	0.40
d115 1
d117 1
@


1.26
log
@- Update to 0.39
@
text
@d9 1
a9 1
PORTVERSION=	0.39
d18 3
@


1.25
log
@- Update to 0.38
- Sort MAN3 and PLIST
@
text
@d9 1
a9 1
PORTVERSION=	0.38
d68 1
d83 12
d121 1
@


1.24
log
@- Update to 0.36
@
text
@d9 1
a9 1
PORTVERSION=	0.36
d18 5
a22 3
RUN_DEPENDS=	p5-Math-CDF>=0:${PORTSDIR}/math/p5-Math-CDF \
		p5-Math-Random>=0.67:${PORTSDIR}/math/p5-Math-Random \
		p5-SVG>=1.07:${PORTSDIR}/textproc/p5-SVG \
d24 1
d26 1
d35 1
a37 1
		Bio::Phylo::Forest.3 \
d41 1
a42 1
		Bio::Phylo::IO.3 \
d46 2
a47 1
		Bio::Phylo::Matrices::Datum.3 \
d49 1
a49 2
		Bio::Phylo::Matrices::Matrix.3 \
		Bio::Phylo::Matrices::TypeSafeData.3 \
d52 3
a55 3
		Bio::Phylo::Matrices::Datatype::Restriction.3 \
		Bio::Phylo::Matrices::Datatype::Protein.3 \
		Bio::Phylo::Matrices::Datatype::Continuous.3 \
d57 3
a59 1
		Bio::Phylo::Matrices::Datatype::Mixed.3 \
a60 3
		Bio::Phylo::NeXML::DOM::Element::Twig.3 \
		Bio::Phylo::NeXML::DOM::Document::Twig.3 \
		Bio::Phylo::NeXML::DOM::Document::Libxml.3 \
a61 2
		Bio::Phylo::NeXML::Meta.3 \
		Bio::Phylo::NeXML::Writable.3 \
d63 3
d67 2
a68 1
		Bio::Phylo::NeXML::DOM::Element.3 \
d70 1
a73 2
		Bio::Phylo::Matrices::Character.3 \
		Bio::Phylo::Matrices::Characters.3 \
d95 2
a97 1
		Bio::Phylo::Treedrawer::Svg.3 \
d99 2
d109 3
d113 1
a113 2
		Bio::Phylo::Util::IDPool.3 \
		Bio::Phylo::Util::Exceptions.3 \
@


1.23
log
@- Update to 0.35
@
text
@d9 1
a9 1
PORTVERSION=	0.35
d12 1
a12 1
MASTER_SITE_SUBDIR=	../../authors/id/R/RV/RVOSA
d67 3
d74 1
d100 1
@


1.22
log
@- Update to 0.34
@
text
@d9 1
a9 1
PORTVERSION=	0.34
d12 1
@


1.21
log
@- Update to 0.33
@
text
@d9 1
a9 1
PORTVERSION=	0.33
@


1.20
log
@- Update to 0.32

With Hat:       perl@@
Changes:        http://search.cpan.org/dist/Bio-Phylo/Changes
@
text
@d9 1
a9 1
PORTVERSION=	0.32
@


1.19
log
@- Update to 0.31
@
text
@d9 1
a9 1
PORTVERSION=	0.31
d64 2
d69 1
d88 1
@


1.18
log
@- Update to 0.30

PR:		ports/152205
Submitted by:	Gea-Suan Lin <gslin@@gslin.org>
@
text
@d9 1
a9 1
PORTVERSION=	0.30
d36 1
d90 1
@


1.17
log
@- Update to 0.28
@
text
@d9 1
a9 1
PORTVERSION=	0.28
d17 1
a17 1
BUILD_DEPENDS=	p5-Exception-Class>1.22:${PORTSDIR}/devel/p5-Exception-Class \
d19 3
a21 1
		p5-IO-String>=1.05:${PORTSDIR}/devel/p5-IO-String \
d23 1
a23 2
		p5-SVG>=1.07:${PORTSDIR}/textproc/p5-SVG
RUN_DEPENDS=	${BUILD_DEPENDS}
d25 1
a25 67
MAN3=	Bio::Phylo.3 \
	Bio::Phylo::EvolutionaryModels.3 \
	Bio::Phylo::Factory.3 \
	Bio::Phylo::Forest::DrawNode.3 \
	Bio::Phylo::Forest::DrawTree.3 \
	Bio::Phylo::Forest.3 \
	Bio::Phylo::Forest::Node.3 \
	Bio::Phylo::Forest::Tree.3 \
	Bio::Phylo::Generator.3 \
	Bio::Phylo::IO.3 \
	Bio::Phylo::Listable.3 \
	Bio::Phylo::Manual.3 \
	Bio::Phylo::Matrices.3 \
	Bio::Phylo::Matrices::Datum.3 \
	Bio::Phylo::Matrices::Datatype.3 \
	Bio::Phylo::Matrices::Matrix.3 \
	Bio::Phylo::Matrices::TypeSafeData.3 \
	Bio::Phylo::Matrices::Datatype::Custom.3 \
	Bio::Phylo::Matrices::Datatype::Dna.3 \
	Bio::Phylo::Matrices::Datatype::Rna.3 \
	Bio::Phylo::Matrices::Datatype::Restriction.3 \
	Bio::Phylo::Matrices::Datatype::Protein.3 \
	Bio::Phylo::Matrices::Datatype::Continuous.3 \
	Bio::Phylo::Matrices::Datatype::Standard.3 \
	Bio::Phylo::Matrices::Datatype::Mixed.3 \
	Bio::Phylo::Mediators::TaxaMediator.3 \
	Bio::Phylo::NeXML::DOM::Element::Twig.3 \
	Bio::Phylo::NeXML::DOM::Document::Twig.3 \
	Bio::Phylo::NeXML::DOM::Document::Libxml.3 \
	Bio::Phylo::NeXML::DOM.3 \
	Bio::Phylo::NeXML::Meta.3 \
	Bio::Phylo::NeXML::Writable.3 \
	Bio::Phylo::NeXML::DOM::Document.3 \
	Bio::Phylo::NeXML::DOM::Element::Libxml.3 \
	Bio::Phylo::NeXML::DOM::Element.3 \
	Bio::Phylo::NeXML::Meta::XMLLiteral.3 \
	Bio::Phylo::Parsers::Newick.3 \
	Bio::Phylo::Parsers::Nexml.3 \
	Bio::Phylo::Parsers::Nexus.3 \
	Bio::Phylo::Parsers::Table.3 \
	Bio::Phylo::Parsers::Taxlist.3 \
	Bio::Phylo::Parsers::Tolweb.3 \
	Bio::Phylo::Project.3 \
	Bio::Phylo::Set.3 \
	Bio::Phylo::Taxa.3 \
	Bio::Phylo::Taxa::TaxaLinker.3 \
	Bio::Phylo::Taxa::Taxon.3 \
	Bio::Phylo::Taxa::TaxonLinker.3 \
	Bio::Phylo::Treedrawer.3 \
	Bio::Phylo::Treedrawer::Abstract.3 \
	Bio::Phylo::Treedrawer::Canvas.3 \
	Bio::Phylo::Treedrawer::Gif.3 \
	Bio::Phylo::Treedrawer::Jpeg.3 \
	Bio::Phylo::Treedrawer::Pdf.3 \
	Bio::Phylo::Treedrawer::Png.3 \
	Bio::Phylo::Treedrawer::Swf.3 \
	Bio::Phylo::Treedrawer::Svg.3 \
	Bio::Phylo::Unparsers::Mrp.3 \
	Bio::Phylo::Unparsers::Newick.3 \
	Bio::Phylo::Unparsers::Nexml.3 \
	Bio::Phylo::Unparsers::Nexus.3 \
	Bio::Phylo::Unparsers::Pagel.3 \
	Bio::Phylo::Util::CONSTANT.3 \
	Bio::Phylo::Util::Logger.3 \
	Bio::Phylo::Util::IDPool.3 \
	Bio::Phylo::Util::Exceptions.3 \
	Bio::Phylo::Util::StackTrace.3
d27 67
a93 1
PERL_CONFIGURE=	yes
@


1.16
log
@- Update to 0.26
- Reset maintainer to perl@@
@
text
@d9 1
a9 1
PORTVERSION=	0.26
@


1.15
log
@- Update to 0.22
@
text
@d9 1
a9 1
PORTVERSION=	0.22
d14 1
a14 1
MAINTAINER=	wen@@FreeBSD.org
d73 1
@


1.14
log
@- update to 1.4.1
Reviewed by:	exp8 run on pointyhat
Supported by:	miwi
@
text
@d9 1
a9 2
PORTVERSION=	0.21
PORTREVISION=	1
d25 1
d73 6
@


1.13
log
@- Update to 0.21
@
text
@d10 1
@


1.12
log
@- Update to 0.18
- Adopt

Feature safe:	yes
@
text
@d9 1
a9 1
PORTVERSION=	0.18
a24 2
	Bio::Phylo::Annotation.3 \
	Bio::Phylo::Dictionary.3 \
a47 3
	Bio::Phylo::Meta.3 \
	Bio::Phylo::Meta::XMLLiteral.3 \
	Bio::Phylo::Mediators::NodeMediator.3 \
d49 10
a64 7
	Bio::Phylo::PhyloWS::Client.3 \
	Bio::Phylo::PhyloWS::Service::Tolweb.3 \
	Bio::Phylo::PhyloWS::Service.3 \
	Bio::Phylo::PhyloWS::Resource::Description.3 \
	Bio::Phylo::PhyloWS.3 \
	Bio::Phylo::PhyloWS::Resource.3 \
	Bio::Phylo::PhyloWS::Service::Timetree.3 \
d79 2
a80 7
	Bio::Phylo::Util::DOM.3 \
	Bio::Phylo::Util::DOM::Document::libxml.3 \
	Bio::Phylo::Util::DOM::Document::twig.3 \
	Bio::Phylo::Util::DOM::DocumentI.3 \
	Bio::Phylo::Util::DOM::Element::libxml.3 \
	Bio::Phylo::Util::DOM::Element::twig.3 \
	Bio::Phylo::Util::DOM::ElementI.3 \
d82 1
a82 3
	Bio::Phylo::Util::IDPool.3 \
	Bio::Phylo::Util::Logger.3 \
	Bio::Phylo::Util::XMLWritable.3
@


1.11
log
@- update to jpeg-8
@
text
@d9 1
a9 2
PORTVERSION=	0.16
PORTREVISION=	2
d14 1
a14 1
MAINTAINER=	ports@@FreeBSD.org
a23 5
MAN1=	dndtag.pl.1 \
	droptip.pl.1 \
	bremer.pl.1 \
	age2bl.pl.1 \
	dnd2svg.pl.1
d25 5
a29 3
	Bio::ObjectCompat.3 \
	Bio::Phylo::Adaptor.3 \
	Bio::Phylo::ConfigData.3 \
a35 4
	Bio::Phylo::Adaptor::Bioperl::Datum.3 \
	Bio::Phylo::Adaptor::Bioperl::Matrix.3 \
	Bio::Phylo::Adaptor::Bioperl::Node.3 \
	Bio::Phylo::Adaptor::Bioperl::Tree.3 \
d50 3
d55 1
d59 10
d77 1
d81 7
d90 1
d93 1
a93 1
PERL_MODBUILD=	5.7.2+
@


1.10
log
@- bump all port that indirectly depends on libjpeg and have not yet been bumped or updated
Requested by:	edwin
@
text
@d10 1
a10 1
PORTREVISION=	1
@


1.9
log
@Reset aaron's port maintainerships due to many maintainer-timeouts.
@
text
@d10 1
@


1.8
log
@- Take advantage of CPAN macro from bsd.sites.mk, change ${MASTER_SITE_PERL_CPAN} to CPAN.

PR:		ports/122674
Submitted by:	Philip M. Gollucci <pgollucci@@p6m7g8.com>
Reworked by:	araujo (myself)
Approved by:	portmgr (pav)
@
text
@d14 1
a14 1
MAINTAINER=	aaron@@FreeBSD.org
@


1.7
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
@d11 1
a11 2
MASTER_SITES=	${MASTER_SITE_PERL_CPAN}
MASTER_SITE_SUBDIR=	Bio
@


1.6
log
@Bump to v0.16.

PR:		111719
Submitted by:	araujo@@bsdmail.org
@
text
@d78 1
a78 1
PERL_MODBUILD=	yes
d80 1
a80 7
.include <bsd.port.pre.mk>

.if ${PERL_LEVEL} < 500702
IGNORE=	requires at least Perl 5.7.2 due to dependencies.  Please install lang/perl5.8 and try again
.endif

.include <bsd.port.post.mk>
@


1.5
log
@- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}.
@
text
@d9 1
a9 2
PORTVERSION=	0.15
PORTREVISION=	1
d25 5
a29 1
MAN1=	dndtag.pl.1
d31 2
d40 4
d47 1
d49 10
d64 1
d66 1
d76 1
@


1.4
log
@Update to v0.15
@
text
@d10 1
@


1.3
log
@- Update to 0.14

Submitted by:	Jin-Shan Tseng <tjs@@cdpa.nsysu.edu.tw>
Approved by:	maintainer timeout (3 months)
@
text
@d9 1
a9 1
PORTVERSION=	0.14
d18 1
a18 1
RUN_DEPENDS=	p5-Exception-Class>=1.23:${PORTSDIR}/devel/p5-Exception-Class \
d21 1
d23 1
a25 1

d52 1
a52 1
	Bio::Phylo::Util::IDPool.3
@


1.2
log
@- Updated from 0.07 to 0.12

Approved by:	tobez (implicit)

0.08 20/Feb/2006 15:14
                       Improved referential integrity between nodes,
                                taxa, and data.
                       Implemented Fastnexus parser
                       Node object silently implements Bio::Tree::NodeI
                       		interface if BioPerl is installed
                       Tree object silently implements Bio::Tree::TreeI
                       		interface if BioPerl is installed
                       Added convertor methods for XML and CIPRES
                       Implemented more Matrix methods
                       Implemented symbol tables in Bio::Phylo::Util::CONSTANT
                       Implemented visit method for listable objects
                       Implemented caching infrastructure for calculations
                       Changed object-model to inside-out arrays
                       Added Biodiversity measures code by Aki Mimoto
                       Moved constants and exceptions to Bio::Phylo::Util::*
                       Fixed memory leak due to circular references
@
text
@d9 1
a9 1
PORTVERSION=	0.12
d18 6
a23 7
BUILD_DEPENDS=	${SITE_PERL}/${PERL_ARCH}/Math/Random.pm:${PORTSDIR}/math/p5-Math-Random \
		${SITE_PERL}/SVG.pm:${PORTSDIR}/textproc/p5-SVG \
		${SITE_PERL}/Exception/Class.pm:${PORTSDIR}/devel/p5-Exception-Class \
		${SITE_PERL}/${PERL_ARCH}/Scalar/Util.pm:${PORTSDIR}/lang/p5-Scalar-List-Utils \
		${SITE_PERL}/IO/String.pm:${PORTSDIR}/devel/p5-IO-String \
		${SITE_PERL}/XML/Simple.pm:${PORTSDIR}/textproc/p5-XML-Simple
RUN_DEPENDS=	${BUILD_DEPENDS}
d26 1
a34 1
	Bio::Phylo::Matrices::Alignment.3 \
a36 3
	Bio::Phylo::Matrices::Sequence.3 \
	Bio::Phylo::Parsers::Fastnewick.3 \
	Bio::Phylo::Parsers::Fastnexus.3 \
d53 1
a53 1
PERL_CONFIGURE=	yes
d57 2
a58 2
.if ${PERL_LEVEL} < 500800
IGNORE=	requires at least Perl 5.8 due to dependencies.  Please install lang/perl5.8 and try again
@


1.1
log
@Adding port biology/p5-Bio-Phylo, Phylogenetic analysis using perl.

Approved by:	tobez (implicit)
@
text
@d9 1
a9 1
PORTVERSION=	0.07
d21 3
a23 1
		${SITE_PERL}/${PERL_ARCH}/Scalar/Util.pm:${PORTSDIR}/lang/p5-Scalar-List-Utils
a26 2
	Bio::Phylo::CONSTANT.3 \
	Bio::Phylo::Exceptions.3 \
d39 2
d48 2
a49 1
	Bio::Phylo::Treedrawer::SVG.3 \
d51 5
a55 1
	Bio::Phylo::Unparsers::Pagel.3
@

