4 files changed, 221 insertions, 0 deletions

diff --git a/biology/p5-Bio-Graphics/Makefile b/biology/p5-Bio-Graphics/Makefile
new file mode 100644
index 000000000000..c99f4ec5fffe
--- /dev/null
+++ b/biology/p5-Bio-Graphics/Makefile
@@ -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>
diff --git a/biology/p5-Bio-Graphics/distinfo b/biology/p5-Bio-Graphics/distinfo
new file mode 100644
index 000000000000..f5984de134c8
--- /dev/null
+++ b/biology/p5-Bio-Graphics/distinfo
@@ -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
diff --git a/biology/p5-Bio-Graphics/pkg-descr b/biology/p5-Bio-Graphics/pkg-descr
new file mode 100644
index 000000000000..c1fe9a49e827
--- /dev/null
+++ b/biology/p5-Bio-Graphics/pkg-descr
@@ -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/
diff --git a/biology/p5-Bio-Graphics/pkg-plist b/biology/p5-Bio-Graphics/pkg-plist
new file mode 100644
index 000000000000..800e8e921661
--- /dev/null
+++ b/biology/p5-Bio-Graphics/pkg-plist
@@ -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