diff options
author | Wen Heping <wen@FreeBSD.org> | 2010-03-03 13:44:19 +0000 |
---|---|---|
committer | Wen Heping <wen@FreeBSD.org> | 2010-03-03 13:44:19 +0000 |
commit | 22c4a3da76cf8258971aaa00afe9c93e10d227de (patch) | |
tree | d1a36e1afe34b75042a860bc0b233c173c630acd | |
parent | File::DirCompare is a perl module to compare two directories using (diff) |
- Update to 0.18
- Adopt
Feature safe: yes
Notes
Notes:
svn path=/head/; revision=250536
-rw-r--r-- | biology/p5-Bio-Phylo/Makefile | 47 | ||||
-rw-r--r-- | biology/p5-Bio-Phylo/distinfo | 6 | ||||
-rw-r--r-- | biology/p5-Bio-Phylo/pkg-plist | 54 |
3 files changed, 72 insertions, 35 deletions
diff --git a/biology/p5-Bio-Phylo/Makefile b/biology/p5-Bio-Phylo/Makefile index 263a1a415eba..7f0baeccf969 100644 --- a/biology/p5-Bio-Phylo/Makefile +++ b/biology/p5-Bio-Phylo/Makefile @@ -6,13 +6,12 @@ # PORTNAME= Bio-Phylo -PORTVERSION= 0.16 -PORTREVISION= 2 +PORTVERSION= 0.18 CATEGORIES= biology perl5 MASTER_SITES= CPAN PKGNAMEPREFIX= p5- -MAINTAINER= ports@FreeBSD.org +MAINTAINER= wen@FreeBSD.org COMMENT= Phylogenetic analysis using perl BUILD_DEPENDS= p5-Exception-Class>1.22:${PORTSDIR}/devel/p5-Exception-Class \ @@ -22,25 +21,18 @@ BUILD_DEPENDS= p5-Exception-Class>1.22:${PORTSDIR}/devel/p5-Exception-Class \ p5-SVG>=1.07:${PORTSDIR}/textproc/p5-SVG RUN_DEPENDS= ${BUILD_DEPENDS} -MAN1= dndtag.pl.1 \ - droptip.pl.1 \ - bremer.pl.1 \ - age2bl.pl.1 \ - dnd2svg.pl.1 MAN3= Bio::Phylo.3 \ - Bio::ObjectCompat.3 \ - Bio::Phylo::Adaptor.3 \ - Bio::Phylo::ConfigData.3 \ + Bio::Phylo::Annotation.3 \ + Bio::Phylo::Dictionary.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::Adaptor::Bioperl::Datum.3 \ - Bio::Phylo::Adaptor::Bioperl::Matrix.3 \ - Bio::Phylo::Adaptor::Bioperl::Node.3 \ - Bio::Phylo::Adaptor::Bioperl::Tree.3 \ Bio::Phylo::Manual.3 \ Bio::Phylo::Matrices.3 \ Bio::Phylo::Matrices::Datum.3 \ @@ -55,11 +47,25 @@ MAN3= Bio::Phylo.3 \ Bio::Phylo::Matrices::Datatype::Continuous.3 \ Bio::Phylo::Matrices::Datatype::Standard.3 \ Bio::Phylo::Matrices::Datatype::Mixed.3 \ + Bio::Phylo::Meta.3 \ + Bio::Phylo::Meta::XMLLiteral.3 \ + Bio::Phylo::Mediators::NodeMediator.3 \ Bio::Phylo::Mediators::TaxaMediator.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::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 \ + Bio::Phylo::Project.3 \ + Bio::Phylo::Set.3 \ Bio::Phylo::Taxa.3 \ Bio::Phylo::Taxa::TaxaLinker.3 \ Bio::Phylo::Taxa::Taxon.3 \ @@ -68,13 +74,22 @@ MAN3= Bio::Phylo.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::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 \ Bio::Phylo::Util::Exceptions.3 \ Bio::Phylo::Util::IDPool.3 \ + Bio::Phylo::Util::Logger.3 \ Bio::Phylo::Util::XMLWritable.3 -PERL_MODBUILD= 5.7.2+ +PERL_CONFIGURE= yes .include <bsd.port.mk> diff --git a/biology/p5-Bio-Phylo/distinfo b/biology/p5-Bio-Phylo/distinfo index 068eea7902e3..9bb660c574f0 100644 --- a/biology/p5-Bio-Phylo/distinfo +++ b/biology/p5-Bio-Phylo/distinfo @@ -1,3 +1,3 @@ -MD5 (Bio-Phylo-0.16.tar.gz) = 78c6d2ceced9b013898e7aa7b61010c0 -SHA256 (Bio-Phylo-0.16.tar.gz) = 17317e23c7423b197e08984aead6e52c454e47badbdfa8447fa499175e2789cd -SIZE (Bio-Phylo-0.16.tar.gz) = 129830 +MD5 (Bio-Phylo-0.18.tar.gz) = ae753f02d3c2fb46368c387ed50eb6ae +SHA256 (Bio-Phylo-0.18.tar.gz) = d1da14b81fe498098fa385f51b0fe779cd64422535f91d93631cc604425d228d +SIZE (Bio-Phylo-0.18.tar.gz) = 223011 diff --git a/biology/p5-Bio-Phylo/pkg-plist b/biology/p5-Bio-Phylo/pkg-plist index 945716b52c14..9a3cf20d0969 100644 --- a/biology/p5-Bio-Phylo/pkg-plist +++ b/biology/p5-Bio-Phylo/pkg-plist @@ -1,25 +1,17 @@ -bin/LRmb.pl -bin/age2bl.pl -bin/bremer.pl -bin/dnd2svg.pl -bin/dndtag.pl -bin/droptip.pl -bin/postmb.pl +%%SITE_PERL%%/Bio/._Phylo.pm %%SITE_PERL%%/Bio/Phylo.pm -%%SITE_PERL%%/Bio/ObjectCompat.pod -%%SITE_PERL%%/Bio/Phylo/Adaptor.pm -%%SITE_PERL%%/Bio/Phylo/ConfigData.pm +%%SITE_PERL%%/Bio/Phylo/Annotation.pm +%%SITE_PERL%%/Bio/Phylo/Dictionary.pm %%SITE_PERL%%/Bio/Phylo/Forest.pm +%%SITE_PERL%%/Bio/Phylo/Forest/DrawNode.pm +%%SITE_PERL%%/Bio/Phylo/Forest/DrawTree.pm %%SITE_PERL%%/Bio/Phylo/Forest/Node.pm %%SITE_PERL%%/Bio/Phylo/Forest/Tree.pm %%SITE_PERL%%/Bio/Phylo/Generator.pm %%SITE_PERL%%/Bio/Phylo/IO.pm +%%SITE_PERL%%/Bio/Phylo/Factory.pm %%SITE_PERL%%/Bio/Phylo/Listable.pm %%SITE_PERL%%/Bio/Phylo/Manual.pod -%%SITE_PERL%%/Bio/Phylo/Adaptor/Bioperl/Node.pm -%%SITE_PERL%%/Bio/Phylo/Adaptor/Bioperl/Datum.pm -%%SITE_PERL%%/Bio/Phylo/Adaptor/Bioperl/Tree.pm -%%SITE_PERL%%/Bio/Phylo/Adaptor/Bioperl/Matrix.pm %%SITE_PERL%%/Bio/Phylo/Matrices.pm %%SITE_PERL%%/Bio/Phylo/Matrices/Datatype.pm %%SITE_PERL%%/Bio/Phylo/Matrices/Datum.pm @@ -33,11 +25,25 @@ bin/postmb.pl %%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Mixed.pm %%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Continuous.pm %%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Rna.pm +%%SITE_PERL%%/Bio/Phylo/Mediators/NodeMediator.pm %%SITE_PERL%%/Bio/Phylo/Mediators/TaxaMediator.pm +%%SITE_PERL%%/Bio/Phylo/Meta.pm +%%SITE_PERL%%/Bio/Phylo/Meta/XMLLiteral.pm %%SITE_PERL%%/Bio/Phylo/Parsers/Newick.pm +%%SITE_PERL%%/Bio/Phylo/Parsers/Nexml.pm %%SITE_PERL%%/Bio/Phylo/Parsers/Nexus.pm %%SITE_PERL%%/Bio/Phylo/Parsers/Table.pm %%SITE_PERL%%/Bio/Phylo/Parsers/Taxlist.pm +%%SITE_PERL%%/Bio/Phylo/Parsers/Tolweb.pm +%%SITE_PERL%%/Bio/Phylo/PhyloWS.pm +%%SITE_PERL%%/Bio/Phylo/PhyloWS/Resource/Description.pm +%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service/Tolweb.pm +%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service/Timetree.pm +%%SITE_PERL%%/Bio/Phylo/PhyloWS/Client.pm +%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service.pm +%%SITE_PERL%%/Bio/Phylo/PhyloWS/Resource.pm +%%SITE_PERL%%/Bio/Phylo/Project.pm +%%SITE_PERL%%/Bio/Phylo/Set.pm %%SITE_PERL%%/Bio/Phylo/Taxa.pm %%SITE_PERL%%/Bio/Phylo/Taxa/Taxon.pm %%SITE_PERL%%/Bio/Phylo/Taxa/TaxaLinker.pm @@ -46,22 +52,38 @@ bin/postmb.pl %%SITE_PERL%%/Bio/Phylo/Treedrawer/Svg.pm %%SITE_PERL%%/Bio/Phylo/Unparsers/Mrp.pm %%SITE_PERL%%/Bio/Phylo/Unparsers/Newick.pm +%%SITE_PERL%%/Bio/Phylo/Unparsers/Nexml.pm %%SITE_PERL%%/Bio/Phylo/Unparsers/Nexus.pm %%SITE_PERL%%/Bio/Phylo/Unparsers/Pagel.pm +%%SITE_PERL%%/Bio/Phylo/Util/DOM/Document/libxml.pm +%%SITE_PERL%%/Bio/Phylo/Util/DOM/Document/twig.pm +%%SITE_PERL%%/Bio/Phylo/Util/DOM/Element/twig.pm +%%SITE_PERL%%/Bio/Phylo/Util/DOM/Element/libxml.pm +%%SITE_PERL%%/Bio/Phylo/Util/DOM/ElementI.pm +%%SITE_PERL%%/Bio/Phylo/Util/DOM/DocumentI.pm +%%SITE_PERL%%/Bio/Phylo/Util/Logger.pm +%%SITE_PERL%%/Bio/Phylo/Util/DOM.pm %%SITE_PERL%%/Bio/Phylo/Util/CONSTANT.pm %%SITE_PERL%%/Bio/Phylo/Util/Exceptions.pm %%SITE_PERL%%/Bio/Phylo/Util/IDPool.pm %%SITE_PERL%%/Bio/Phylo/Util/XMLWritable.pm -@dirrm %%SITE_PERL%%/Bio/Phylo/Adaptor/Bioperl -@dirrm %%SITE_PERL%%/Bio/Phylo/Adaptor +%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio-Phylo/.packlist +@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio-Phylo +@dirrm %%SITE_PERL%%/Bio/Phylo/Util/DOM/Document +@dirrm %%SITE_PERL%%/Bio/Phylo/Util/DOM/Element +@dirrm %%SITE_PERL%%/Bio/Phylo/Util/DOM @dirrm %%SITE_PERL%%/Bio/Phylo/Util @dirrm %%SITE_PERL%%/Bio/Phylo/Unparsers @dirrm %%SITE_PERL%%/Bio/Phylo/Treedrawer @dirrm %%SITE_PERL%%/Bio/Phylo/Taxa +@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS/Resource +@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS/Service +@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS @dirrm %%SITE_PERL%%/Bio/Phylo/Parsers @dirrm %%SITE_PERL%%/Bio/Phylo/Matrices/Datatype @dirrm %%SITE_PERL%%/Bio/Phylo/Matrices @dirrm %%SITE_PERL%%/Bio/Phylo/Mediators +@dirrm %%SITE_PERL%%/Bio/Phylo/Meta @dirrm %%SITE_PERL%%/Bio/Phylo/Forest @dirrm %%SITE_PERL%%/Bio/Phylo @dirrmtry %%SITE_PERL%%/Bio |