Index: head/biology/Makefile
===================================================================
--- head/biology/Makefile	(revision 229848)
+++ head/biology/Makefile	(revision 229849)
@@ -1,93 +1,94 @@
 # $FreeBSD$
 #
 
     COMMENT = Biology
 
     SUBDIR += L-Breeder
     SUBDIR += adun
     SUBDIR += ariadne
     SUBDIR += artemis
     SUBDIR += avida
     SUBDIR += babel
     SUBDIR += belvu
     SUBDIR += biococoa
     SUBDIR += biojava
     SUBDIR += blast
     SUBDIR += blat
     SUBDIR += boinc-simap
     SUBDIR += chemeq
     SUBDIR += clustalw
     SUBDIR += consed
     SUBDIR += crimap
     SUBDIR += distribfold
     SUBDIR += dna-qc
     SUBDIR += dotter
     SUBDIR += embassy
     SUBDIR += emboss
     SUBDIR += fasta
     SUBDIR += fasta3
     SUBDIR += fastdnaml
     SUBDIR += finchtv
     SUBDIR += fluctuate
     SUBDIR += garlic
     SUBDIR += genpak
     SUBDIR += gff2ps
     SUBDIR += gmap
     SUBDIR += gperiodic
     SUBDIR += grappa
     SUBDIR += hmmer
     SUBDIR += jalview
     SUBDIR += kinemage
     SUBDIR += lagan
     SUBDIR += lamarc
     SUBDIR += libgenome
     SUBDIR += linux-foldingathome
     SUBDIR += lsysexp
     SUBDIR += mafft
     SUBDIR += mapm3
     SUBDIR += migrate
     SUBDIR += molden
     SUBDIR += mopac
     SUBDIR += mrbayes
     SUBDIR += mummer
     SUBDIR += muscle
     SUBDIR += ncbi-toolkit
     SUBDIR += njplot
     SUBDIR += ortep3
     SUBDIR += p5-AcePerl
     SUBDIR += p5-Bio-ASN1-EntrezGene
     SUBDIR += p5-Bio-Das
+    SUBDIR += p5-Bio-Graphics
     SUBDIR += p5-Bio-Phylo
     SUBDIR += p5-bioperl
     SUBDIR += p5-bioperl-devel
     SUBDIR += p5-bioperl-run
     SUBDIR += p5-bioperl-run-devel
     SUBDIR += paml
     SUBDIR += phd2fasta
     SUBDIR += phrap
     SUBDIR += phred
     SUBDIR += phylip
     SUBDIR += platon
     SUBDIR += povchem
     SUBDIR += primer3
     SUBDIR += protomol
     SUBDIR += psi88
     SUBDIR += py-biopython
     SUBDIR += pymol
     SUBDIR += rasmol
     SUBDIR += recombine
     SUBDIR += ruby-bio
     SUBDIR += seaview
     SUBDIR += seqio
     SUBDIR += sim4
     SUBDIR += ssaha
     SUBDIR += tRNAscan-SE
     SUBDIR += t_coffee
     SUBDIR += tinker
     SUBDIR += treepuzzle
     SUBDIR += treeviewx
     SUBDIR += wise
     SUBDIR += xdrawchem
     SUBDIR += xmolwt
 
 .include <bsd.port.subdir.mk>

Property changes on: head/biology/Makefile
___________________________________________________________________
Modified: cvs2svn:cvs-rev
## -1 +1 ##
-1.103
\ No newline at end of property
+1.104
\ No newline at end of property
Index: head/biology/p5-Bio-Graphics/Makefile
===================================================================
--- head/biology/p5-Bio-Graphics/Makefile	(nonexistent)
+++ head/biology/p5-Bio-Graphics/Makefile	(revision 229849)
@@ -0,0 +1,117 @@
+# New ports collection makefile for:	p5-Bio-Graphics
+# Date created:				30 Dec 2008
+# Whom:					Wen Heping <wenheping@gmail.com>
+#
+# $FreeBSD$
+#
+
+PORTNAME=	Bio-Graphics
+PORTVERSION=	1.84
+CATEGORIES=	biology perl5
+MASTER_SITES=	CPAN
+PKGNAMEPREFIX=	p5-
+
+MAINTAINER=	wenheping@gmail.com
+COMMENT=	Generate GD Images of Bio::Seq Objects
+
+BUILD_DEPENDS=	p5-GD>=2.3:${PORTSDIR}/graphics/p5-GD \
+		p5-GD-SVG>=0:${PORTSDIR}/graphics/p5-GD-SVG \
+		p5-bioperl>=1.6.0:${PORTSDIR}/biology/p5-bioperl \
+		p5-Text-ParseWords>=0:${PORTSDIR}/textproc/p5-Text-ParseWords \
+		p5-ExtUtils-MakeMaker>=0:${PORTSDIR}/devel/p5-ExtUtils-MakeMaker
+RUN_DEPENDS=	${BUILD_DEPENDS}
+
+PERL_MODBUILD=	YES
+
+MAN1=	contig_draw.pl.1 feature_draw.pl.1 \
+	frend.pl.1 search_overview.pl.1
+
+MAN3=	Bio::Graphics.3 \
+	Bio::Graphics::Glyph::transcript2.3 \
+	Bio::Graphics::Glyph::extending_arrow.3 \
+	Bio::Graphics::Wiggle.3 \
+	Bio::Graphics::ConfiguratorI.3 \
+	Bio::Graphics::DrawTransmembrane.3 \
+	Bio::Graphics::Feature.3 \
+	Bio::Graphics::FeatureBase.3 \
+	Bio::Graphics::FeatureFile.3 \
+	Bio::Graphics::FeatureFile::Iterator.3 \
+	Bio::Graphics::Glyph.3 \
+	Bio::Graphics::Glyph::Factory.3 \
+	Bio::Graphics::Glyph::alignment.3 \
+	Bio::Graphics::Glyph::anchored_arrow.3 \
+	Bio::Graphics::Glyph::arrow.3 \
+	Bio::Graphics::Glyph::box.3 \
+	Bio::Graphics::Glyph::broken_line.3 \
+	Bio::Graphics::Glyph::cds.3 \
+	Bio::Graphics::Glyph::christmas_arrow.3 \
+	Bio::Graphics::Glyph::crossbox.3 \
+	Bio::Graphics::Glyph::dashed_line.3 \
+	Bio::Graphics::Glyph::diamond.3 \
+	Bio::Graphics::Glyph::dna.3 \
+	Bio::Graphics::Glyph::dot.3 \
+	Bio::Graphics::Glyph::dumbbell.3 \
+	Bio::Graphics::Glyph::ellipse.3 \
+	Bio::Graphics::Glyph::ex.3 \
+	Bio::Graphics::Glyph::fixedwidth.3 \
+	Bio::Graphics::Glyph::flag.3 \
+	Bio::Graphics::Glyph::gene.3 \
+	Bio::Graphics::Glyph::generic.3 \
+	Bio::Graphics::Glyph::graded_segments.3 \
+	Bio::Graphics::Glyph::group.3 \
+	Bio::Graphics::Glyph::heat_map.3 \
+	Bio::Graphics::Glyph::heat_map_ideogram.3 \
+	Bio::Graphics::Glyph::heterogeneous_segments.3 \
+	Bio::Graphics::Glyph::ideogram.3 \
+	Bio::Graphics::Glyph::image.3 \
+	Bio::Graphics::Glyph::lightning.3 \
+	Bio::Graphics::Glyph::line.3 \
+	Bio::Graphics::Glyph::merge_parts.3 \
+	Bio::Graphics::Glyph::merged_alignment.3 \
+	Bio::Graphics::Glyph::minmax.3 \
+	Bio::Graphics::Glyph::oval.3 \
+	Bio::Graphics::Glyph::pentagram.3 \
+	Bio::Graphics::Glyph::phylo_align.3 \
+	Bio::Graphics::Glyph::pinsertion.3 \
+	Bio::Graphics::Glyph::primers.3 \
+	Bio::Graphics::Glyph::processed_transcript.3 \
+	Bio::Graphics::Glyph::protein.3 \
+	Bio::Graphics::Glyph::ragged_ends.3 \
+	Bio::Graphics::Glyph::redgreen_box.3 \
+	Bio::Graphics::Glyph::redgreen_segment.3 \
+	Bio::Graphics::Glyph::repeating_shape.3 \
+	Bio::Graphics::Glyph::rndrect.3 \
+	Bio::Graphics::Glyph::ruler_arrow.3 \
+	Bio::Graphics::Glyph::saw_teeth.3 \
+	Bio::Graphics::Glyph::segmented_keyglyph.3 \
+	Bio::Graphics::Glyph::segments.3 \
+	Bio::Graphics::Glyph::so_transcript.3 \
+	Bio::Graphics::Glyph::span.3 \
+	Bio::Graphics::Glyph::spectrogram.3 \
+	Bio::Graphics::Glyph::splice_site.3 \
+	Bio::Graphics::Glyph::stackedplot.3 \
+	Bio::Graphics::Glyph::ternary_plot.3 \
+	Bio::Graphics::Glyph::text_in_box.3 \
+	Bio::Graphics::Glyph::three_letters.3 \
+	Bio::Graphics::Glyph::tic_tac_toe.3 \
+	Bio::Graphics::Glyph::toomany.3 \
+	Bio::Graphics::Glyph::trace.3 \
+	Bio::Graphics::Glyph::track.3 \
+	Bio::Graphics::Glyph::transcript.3 \
+	Bio::Graphics::Glyph::translation.3 \
+	Bio::Graphics::Glyph::triangle.3 \
+	Bio::Graphics::Glyph::two_bolts.3 \
+	Bio::Graphics::Glyph::wave.3 \
+	Bio::Graphics::Glyph::weighted_arrow.3 \
+	Bio::Graphics::Glyph::whiskerplot.3 \
+	Bio::Graphics::Glyph::wiggle_box.3 \
+	Bio::Graphics::Glyph::wiggle_density.3 \
+	Bio::Graphics::Glyph::wiggle_xyplot.3 \
+	Bio::Graphics::Glyph::xyplot.3 \
+	Bio::Graphics::Panel.3 \
+	Bio::Graphics::Pictogram.3 \
+	Bio::Graphics::RendererI.3 \
+	Bio::Graphics::Util.3 \
+	Bio::Graphics::Wiggle::Loader.3
+
+.include <bsd.port.mk>

Property changes on: head/biology/p5-Bio-Graphics/Makefile
___________________________________________________________________
Added: cvs2svn:cvs-rev
## -0,0 +1 ##
+1.1
\ No newline at end of property
Added: svn:keywords
## -0,0 +1 ##
+FreeBSD=%H
\ No newline at end of property
Index: head/biology/p5-Bio-Graphics/distinfo
===================================================================
--- head/biology/p5-Bio-Graphics/distinfo	(nonexistent)
+++ head/biology/p5-Bio-Graphics/distinfo	(revision 229849)
@@ -0,0 +1,3 @@
+MD5 (Bio-Graphics-1.84.tar.gz) = ff4e72484d345d5d711b80606426faff
+SHA256 (Bio-Graphics-1.84.tar.gz) = f255268a98fee1bdc8a4e5be4802ff3fd7e1c47c6a6eb76c9ec651425b9e6caa
+SIZE (Bio-Graphics-1.84.tar.gz) = 553114

Property changes on: head/biology/p5-Bio-Graphics/distinfo
___________________________________________________________________
Added: cvs2svn:cvs-rev
## -0,0 +1 ##
+1.1
\ No newline at end of property
Added: fbsd:nokeywords
## -0,0 +1 ##
+yes
\ No newline at end of property
Index: head/biology/p5-Bio-Graphics/pkg-descr
===================================================================
--- head/biology/p5-Bio-Graphics/pkg-descr	(nonexistent)
+++ head/biology/p5-Bio-Graphics/pkg-descr	(revision 229849)
@@ -0,0 +1,4 @@
+p5-Bio-Graphics is a simple GD-based renderer (diagram drawer)
+for DNA and protein sequences.
+
+WWW: http://search.cpan.org/dist/Bio-Graphics/

Property changes on: head/biology/p5-Bio-Graphics/pkg-descr
___________________________________________________________________
Added: cvs2svn:cvs-rev
## -0,0 +1 ##
+1.1
\ No newline at end of property
Added: fbsd:nokeywords
## -0,0 +1 ##
+yes
\ No newline at end of property
Index: head/biology/p5-Bio-Graphics/pkg-plist
===================================================================
--- head/biology/p5-Bio-Graphics/pkg-plist	(nonexistent)
+++ head/biology/p5-Bio-Graphics/pkg-plist	(revision 229849)
@@ -0,0 +1,97 @@
+bin/contig_draw.pl
+bin/feature_draw.pl
+bin/frend.pl
+bin/render_msa.pl
+bin/search_overview.pl
+%%SITE_PERL%%/Bio/Graphics/FeatureFile/Iterator.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/phylo_align.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/spectrogram.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/ideogram.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/heat_map.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/smoothing.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/stackedplot.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/trace.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/wiggle_density.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/fixedwidth.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/wiggle_box.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/ternary_plot.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/wiggle_xyplot.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/heat_map_ideogram.pm
+%%SITE_PERL%%/Bio/Graphics/Wiggle/Loader.pm
+%%SITE_PERL%%/Bio/Graphics/DrawTransmembrane.pm
+%%SITE_PERL%%/Bio/Graphics/FeatureBase.pm
+%%SITE_PERL%%/Bio/Graphics/RendererI.pm
+%%SITE_PERL%%/Bio/Graphics/Util.pm
+%%SITE_PERL%%/Bio/Graphics/Pictogram.pm
+%%SITE_PERL%%/Bio/Graphics/ConfiguratorI.pm
+%%SITE_PERL%%/Bio/Graphics/FeatureFile.pm
+%%SITE_PERL%%/Bio/Graphics/Feature.pm
+%%SITE_PERL%%/Bio/Graphics/Panel.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph.pm
+%%SITE_PERL%%/Bio/Graphics.pm
+%%SITE_PERL%%/Bio/Graphics/Wiggle.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/track.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/generic.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/saw_teeth.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/pentagram.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/image.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/christmas_arrow.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/flag.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/broken_line.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/ellipse.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/cds.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/protein.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/repeating_shape.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/graded_segments.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/merge_parts.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/weighted_arrow.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/splice_site.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/wave.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/xyplot.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/gene.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/ragged_ends.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/segments.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/ex.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/crossbox.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/lightning.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/merged_alignment.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/ruler_arrow.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/rndrect.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/span.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/pinsertion.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/two_bolts.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/primers.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/diamond.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/dna.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/dumbbell.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/box.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/toomany.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/minmax.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/whiskerplot.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/redgreen_box.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/alignment.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/triangle.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/tic_tac_toe.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/transcript2.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/text_in_box.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/group.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/translation.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/three_letters.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/line.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/heterogeneous_segments.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/extending_arrow.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/transcript.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/oval.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/arrow.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/dashed_line.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/dot.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/Factory.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/so_transcript.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/processed_transcript.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/segmented_keyglyph.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/anchored_arrow.pm
+%%SITE_PERL%%/Bio/Graphics/Glyph/redgreen_segment.pm
+@dirrm %%SITE_PERL%%/Bio/Graphics/FeatureFile
+@dirrm %%SITE_PERL%%/Bio/Graphics/Wiggle
+@dirrm %%SITE_PERL%%/Bio/Graphics/Glyph
+@dirrmtry %%SITE_PERL%%/Bio/Graphics

Property changes on: head/biology/p5-Bio-Graphics/pkg-plist
___________________________________________________________________
Added: cvs2svn:cvs-rev
## -0,0 +1 ##
+1.1
\ No newline at end of property
Added: svn:keywords
## -0,0 +1 ##
+FreeBSD=%H
\ No newline at end of property