head	1.20;
access;
symbols
	RELEASE_8_3_0:1.18
	RELEASE_9_0_0:1.17
	RELEASE_7_4_0:1.13
	RELEASE_8_2_0:1.13
	RELEASE_6_EOL:1.11
	RELEASE_8_1_0:1.7
	RELEASE_7_3_0:1.6
	RELEASE_8_0_0:1.5
	RELEASE_7_2_0:1.5
	RELEASE_7_1_0:1.5
	RELEASE_6_4_0:1.5
	RELEASE_5_EOL:1.5
	RELEASE_7_0_0:1.5
	RELEASE_6_3_0:1.5
	PRE_XORG_7:1.4
	RELEASE_4_EOL:1.4
	RELEASE_6_2_0:1.2;
locks; strict;
comment	@# @;


1.20
date	2013.02.16.16.00.14;	author svnexp;	state Exp;
branches;
next	1.19;

1.19
date	2012.06.12.18.55.28;	author sunpoet;	state Exp;
branches;
next	1.18;

1.18
date	2012.03.05.08.22.46;	author wen;	state Exp;
branches;
next	1.17;

1.17
date	2011.10.17.01.38.22;	author sunpoet;	state Exp;
branches;
next	1.16;

1.16
date	2011.08.01.03.11.37;	author sunpoet;	state Exp;
branches;
next	1.15;

1.15
date	2011.07.16.06.08.34;	author sunpoet;	state Exp;
branches;
next	1.14;

1.14
date	2011.04.01.08.34.03;	author wen;	state Exp;
branches;
next	1.13;

1.13
date	2010.12.16.08.19.56;	author wen;	state Exp;
branches;
next	1.12;

1.12
date	2010.12.12.21.29.40;	author pgollucci;	state Exp;
branches;
next	1.11;

1.11
date	2010.11.22.08.50.39;	author wen;	state Exp;
branches;
next	1.10;

1.10
date	2010.11.09.14.15.44;	author jadawin;	state Exp;
branches;
next	1.9;

1.9
date	2010.10.25.10.59.25;	author wen;	state Exp;
branches;
next	1.8;

1.8
date	2010.10.22.09.29.44;	author wen;	state Exp;
branches;
next	1.7;

1.7
date	2010.03.09.07.34.48;	author wen;	state Exp;
branches;
next	1.6;

1.6
date	2010.03.03.13.44.19;	author wen;	state Exp;
branches;
next	1.5;

1.5
date	2007.06.19.20.15.58;	author aaron;	state Exp;
branches;
next	1.4;

1.4
date	2006.12.27.18.58.26;	author aaron;	state Exp;
branches;
next	1.3;

1.3
date	2006.12.07.15.43.27;	author laszlof;	state Exp;
branches;
next	1.2;

1.2
date	2006.05.19.23.18.32;	author aaron;	state Exp;
branches;
next	1.1;

1.1
date	2006.05.13.16.48.15;	author aaron;	state Exp;
branches;
next	;


desc
@@


1.20
log
@## SVN ## Exported commit - http://svnweb.freebsd.org/changeset/base/312356
## SVN ## CVS IS DEPRECATED: http://wiki.freebsd.org/CvsIsDeprecated
@
text
@%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Phylo/.packlist
%%SITE_PERL%%/Bio/Phylo.pm
%%SITE_PERL%%/Bio/Phylo/EvolutionaryModels.pm
%%SITE_PERL%%/Bio/Phylo/Factory.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/NodeRole.pm
%%SITE_PERL%%/Bio/Phylo/Forest/Tree.pm
%%SITE_PERL%%/Bio/Phylo/Forest/TreeRole.pm
%%SITE_PERL%%/Bio/Phylo/Generator.pm
%%SITE_PERL%%/Bio/Phylo/IO.pm
%%SITE_PERL%%/Bio/Phylo/Identifiable.pm
%%SITE_PERL%%/Bio/Phylo/Listable.pm
%%SITE_PERL%%/Bio/Phylo/ListableRole.pm
%%SITE_PERL%%/Bio/Phylo/Manual.pod
%%SITE_PERL%%/Bio/Phylo/Matrices.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Character.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Characters.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Continuous.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Custom.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Dna.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Mixed.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Protein.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Restriction.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Rna.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Standard.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datum.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/DatumRole.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Matrix.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/MatrixRole.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/TypeSafeData.pm
%%SITE_PERL%%/Bio/Phylo/Mediators/TaxaMediator.pm
%%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna.pm
%%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna/F81.pm
%%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna/GTR.pm
%%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna/HKY85.pm
%%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna/JC69.pm
%%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna/K80.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Document.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Document/Libxml.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Document/Twig.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Element.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Element/Libxml.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Element/Twig.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/Entities.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/Meta.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/Meta/XMLLiteral.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/Writable.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Abstract.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Adjacency.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Fasta.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Figtree.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Json.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/Phylip.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Phyloxml.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Table.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Taxlist.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Tnrs.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Tolweb.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Ubiocbmeta.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Ubiometa.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Ubiosearch.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Client.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Resource.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Resource/Description.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service/Timetree.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service/Tolweb.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service/UbioClassificationBank.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service/UbioNameBank.pm
%%SITE_PERL%%/Bio/Phylo/Project.pm
%%SITE_PERL%%/Bio/Phylo/Set.pm
%%SITE_PERL%%/Bio/Phylo/Taxa.pm
%%SITE_PERL%%/Bio/Phylo/Taxa/TaxaLinker.pm
%%SITE_PERL%%/Bio/Phylo/Taxa/Taxon.pm
%%SITE_PERL%%/Bio/Phylo/Taxa/TaxonLinker.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Abstract.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Canvas.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Gif.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Jpeg.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Pdf.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Png.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Processing.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Svg.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Swf.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Abstract.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Adjacency.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Cdao.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Fasta.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Hennig86.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Html.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Json.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/Unparsers/Phylip.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Phyloxml.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Rss1.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Taxlist.pm
%%SITE_PERL%%/Bio/Phylo/Util/CONSTANT.pm
%%SITE_PERL%%/Bio/Phylo/Util/CONSTANT/Int.pm
%%SITE_PERL%%/Bio/Phylo/Util/Dependency.pm
%%SITE_PERL%%/Bio/Phylo/Util/Exceptions.pm
%%SITE_PERL%%/Bio/Phylo/Util/IDPool.pm
%%SITE_PERL%%/Bio/Phylo/Util/Logger.pm
%%SITE_PERL%%/Bio/Phylo/Util/MOP.pm
%%SITE_PERL%%/Bio/Phylo/Util/OptionalInterface.pm
%%SITE_PERL%%/Bio/Phylo/Util/StackTrace.pm
%%SITE_PERL%%/Bio/PhyloRole.pm
@@dirrm %%SITE_PERL%%/Bio/Phylo/Util/CONSTANT
@@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/Service
@@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS/Resource
@@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS
@@dirrm %%SITE_PERL%%/Bio/Phylo/Parsers
@@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML/Meta
@@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Element
@@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Document
@@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML/DOM
@@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML
@@dirrm %%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna
@@dirrm %%SITE_PERL%%/Bio/Phylo/Models/Substitution
@@dirrm %%SITE_PERL%%/Bio/Phylo/Models
@@dirrm %%SITE_PERL%%/Bio/Phylo/Mediators
@@dirrm %%SITE_PERL%%/Bio/Phylo/Matrices/Datatype
@@dirrm %%SITE_PERL%%/Bio/Phylo/Matrices
@@dirrm %%SITE_PERL%%/Bio/Phylo/Forest
@@dirrm %%SITE_PERL%%/Bio/Phylo
@@dirrmtry %%SITE_PERL%%/Bio
@@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Phylo
@@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio
@


1.19
log
@- Update to 0.50
- Add TEST_DEPENDS
- Sort PLIST
@
text
@d1 1
d9 1
d11 1
d16 1
d31 1
d33 1
d56 1
d112 1
d117 1
d120 2
a121 3
%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Phylo/.packlist
@@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Phylo
@@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio
d144 2
@


1.18
log
@- Update to 0.46
@
text
@d30 2
a31 1
%%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna/K80.pm
a33 1
%%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna/F81.pm
d35 1
a35 1
%%SITE_PERL%%/Bio/Phylo/Models/Substitution/Dna.pm
d43 1
d48 1
d58 1
d60 12
d89 1
d93 1
d102 2
d111 3
a113 16
%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio-Phylo/.packlist
%%SITE_PERL%%/Bio/Phylo/PhyloWS.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/Entities.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Rss1.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Ubiocbmeta.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Ubiosearch.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Ubiometa.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Client.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service/Timetree.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service/UbioClassificationBank.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service/UbioNameBank.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Service/Tolweb.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Resource.pm
%%SITE_PERL%%/Bio/Phylo/PhyloWS/Resource/Description.pm
@@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio-Phylo
@


1.17
log
@- Update to 0.43
@
text
@d30 6
d121 3
@


1.16
log
@- Update to 0.39
@
text
@d68 1
d70 1
@


1.15
log
@- Update to 0.38
- Sort MAN3 and PLIST
@
text
@d85 14
d104 3
@


1.14
log
@- Update to 0.36
@
text
@d3 1
d10 1
a11 2
%%SITE_PERL%%/Bio/Phylo/IO.pm
%%SITE_PERL%%/Bio/Phylo/Factory.pm
d15 1
a16 1
%%SITE_PERL%%/Bio/Phylo/Matrices/Character.pm
d18 8
a28 8
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Protein.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Standard.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Restriction.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Dna.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Custom.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Mixed.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Continuous.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datatype/Rna.pm
d30 2
d34 2
d37 1
a37 3
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Element/Libxml.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Document.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Element.pm
a38 2
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/Meta.pm
d54 1
a55 1
%%SITE_PERL%%/Bio/Phylo/Taxa/TaxaLinker.pm
d58 1
d60 2
a62 1
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Swf.pm
d64 1
a64 3
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Gif.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Jpeg.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Abstract.pm
d66 1
d68 2
a76 1
%%SITE_PERL%%/Bio/Phylo/Util/Logger.pm
d78 1
d81 2
d91 1
a94 1
@@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML/Meta
d96 1
a98 1
@@dirrm %%SITE_PERL%%/Bio/Phylo/Mediators
@


1.13
log
@- Update to 0.33
@
text
@d15 2
d42 1
d47 1
d73 1
@


1.12
log
@- Update to 0.32

With Hat:       perl@@
Changes:        http://search.cpan.org/dist/Bio-Phylo/Changes
@
text
@a38 1
%%SITE_PERL%%/Bio/Phylo/Parsers/Phylip.pm
d43 1
@


1.11
log
@- Update to 0.31
@
text
@d38 3
d62 1
@


1.10
log
@- Update to 0.28
@
text
@d9 1
d64 1
@


1.9
log
@- Update to 0.26
- Reset maintainer to perl@@
@
text
@a1 1
%%SITE_PERL%%/Bio/Phylo/._EvolutionaryModels.pm
a34 1
%%SITE_PERL%%/Bio/Phylo/NeXML/._Meta.pm
a49 1
%%SITE_PERL%%/Bio/Phylo/Treedrawer/._Abstract.pm
@


1.8
log
@- Update to 0.22
@
text
@d2 1
d52 1
@


1.7
log
@- Update to 0.21
@
text
@d2 1
a28 3
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Document/._Libxml.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Document/._Twig.pm
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Element/._Twig.pm
a29 1
%%SITE_PERL%%/Bio/Phylo/NeXML/DOM/Element/._Libxml.pm
a32 1
%%SITE_PERL%%/Bio/Phylo/NeXML/Meta/._XMLLiteral.pm
a33 1
%%SITE_PERL%%/Bio/Phylo/NeXML/._DOM.pm
d51 7
a68 1
%%SITE_PERL%%/Bio/Phylo/Util/._StackTrace.pm
a70 3
@@dirrm %%SITE_PERL%%/Bio/Phylo/Util/DOM/Document
@@dirrm %%SITE_PERL%%/Bio/Phylo/Util/DOM/Element
@@dirrm %%SITE_PERL%%/Bio/Phylo/Util/DOM
a74 3
@@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS/Resource
@@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS/Service
@@dirrm %%SITE_PERL%%/Bio/Phylo/PhyloWS
a75 1
@@dirrm %%SITE_PERL%%/Bio/Phylo/NeXML/Meta
d79 1
a83 1
@@dirrm %%SITE_PERL%%/Bio/Phylo/Meta
@


1.6
log
@- Update to 0.18
- Adopt

Feature safe:	yes
@
text
@a0 1
%%SITE_PERL%%/Bio/._Phylo.pm
a1 2
%%SITE_PERL%%/Bio/Phylo/Annotation.pm
%%SITE_PERL%%/Bio/Phylo/Dictionary.pm
a24 1
%%SITE_PERL%%/Bio/Phylo/Mediators/NodeMediator.pm
d26 17
a42 2
%%SITE_PERL%%/Bio/Phylo/Meta.pm
%%SITE_PERL%%/Bio/Phylo/Meta/XMLLiteral.pm
a48 7
%%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
a61 6
%%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
a62 1
%%SITE_PERL%%/Bio/Phylo/Util/DOM.pm
d66 2
a67 1
%%SITE_PERL%%/Bio/Phylo/Util/XMLWritable.pm
d81 5
@


1.5
log
@Bump to v0.16.

PR:		111719
Submitted by:	araujo@@bsdmail.org
@
text
@d1 1
a1 7
bin/LRmb.pl
bin/age2bl.pl
bin/bremer.pl
bin/dnd2svg.pl
bin/dndtag.pl
bin/droptip.pl
bin/postmb.pl
d3 2
a4 3
%%SITE_PERL%%/Bio/ObjectCompat.pod
%%SITE_PERL%%/Bio/Phylo/Adaptor.pm
%%SITE_PERL%%/Bio/Phylo/ConfigData.pm
d6 2
d12 1
a14 4
%%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
d28 1
d30 2
d33 1
d37 10
d55 1
d58 8
d70 5
a74 2
@@dirrm %%SITE_PERL%%/Bio/Phylo/Adaptor/Bioperl
@@dirrm %%SITE_PERL%%/Bio/Phylo/Adaptor
d79 3
d86 1
@


1.4
log
@Update to v0.15
@
text
@d9 2
d19 4
d24 1
d27 10
d43 2
d54 3
d62 1
d64 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
@d1 6
a6 1
@@comment $FreeBSD$
d8 26
a33 6
bin/droptip.pl
bin/dndtag.pl
bin/dnd2svg.pl
bin/bremer.pl
bin/age2bl.pl
bin/LRmb.pl
a34 26
%%SITE_PERL%%/Bio/Phylo/Util/Exceptions.pm
%%SITE_PERL%%/Bio/Phylo/Util/CONSTANT.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Pagel.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Nexus.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Newick.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Mrp.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer/Svg.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer.pm
%%SITE_PERL%%/Bio/Phylo/Taxa/Taxon.pm
%%SITE_PERL%%/Bio/Phylo/Taxa.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Taxlist.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Table.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Nexus.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Newick.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Matrix.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datum.pm
%%SITE_PERL%%/Bio/Phylo/Matrices.pm
%%SITE_PERL%%/Bio/Phylo/Manual.pod
%%SITE_PERL%%/Bio/Phylo/Listable.pm
%%SITE_PERL%%/Bio/Phylo/IO.pm
%%SITE_PERL%%/Bio/Phylo/Generator.pm
%%SITE_PERL%%/Bio/Phylo/Forest/Tree.pm
%%SITE_PERL%%/Bio/Phylo/Forest/Node.pm
%%SITE_PERL%%/Bio/Phylo/Forest.pm
%%SITE_PERL%%/Bio/Phylo/ConfigData.pm
%%SITE_PERL%%/Bio/Phylo.pm
@


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
@d1 7
d9 26
a34 5
bin/age2bl.pl
bin/bremer.pl
bin/dnd2svg.pl
bin/droptip.pl
bin/postmb.pl
a35 32
%%SITE_PERL%%/Bio/Phylo/Forest.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/Listable.pm
%%SITE_PERL%%/Bio/Phylo/Manual.pod
%%SITE_PERL%%/Bio/Phylo/Matrices.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Alignment.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Datum.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Matrix.pm
%%SITE_PERL%%/Bio/Phylo/Matrices/Sequence.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Fastnewick.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Fastnexus.pm
%%SITE_PERL%%/Bio/Phylo/Parsers/Newick.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/Taxa.pm
%%SITE_PERL%%/Bio/Phylo/Taxa/Taxon.pm
%%SITE_PERL%%/Bio/Phylo/Treedrawer.pm
%%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/Nexus.pm
%%SITE_PERL%%/Bio/Phylo/Unparsers/Pagel.pm
%%SITE_PERL%%/Bio/Phylo/Util/CONSTANT.pm
%%SITE_PERL%%/Bio/Phylo/Util/Exceptions.pm
%%SITE_PERL%%/Bio/Phylo/Util/IDPool.pm
%%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Phylo/.packlist
@@dirrm %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio/Phylo
@@dirrmtry %%SITE_PERL%%/%%PERL_ARCH%%/auto/Bio
@


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

Approved by:	tobez (implicit)
@
text
@a7 2
%%SITE_PERL%%/Bio/Phylo/CONSTANT.pm
%%SITE_PERL%%/Bio/Phylo/Exceptions.pm
d20 2
d29 2
a30 1
%%SITE_PERL%%/Bio/Phylo/Treedrawer/SVG.pm
d32 1
d34 3
d40 1
@

