ports/132088: [New Port]biology/p5-Bio-Graphics:Generate GD Images of Bio::Seq Objects

Wen Heping wenheping at gmail.com
Wed Feb 25 08:10:03 UTC 2009 

>Number:         132088
>Category:       ports
>Synopsis:       [New Port]biology/p5-Bio-Graphics:Generate GD Images of Bio::Seq Objects
>Confidential:   no
>Severity:       non-critical
>Priority:       low
>Responsible:    freebsd-ports-bugs
>State:          open
>Quarter:        
>Keywords:       
>Date-Required:
>Class:          change-request
>Submitter-Id:   current-users
>Arrival-Date:   Wed Feb 25 08:10:03 UTC 2009
>Closed-Date:
>Last-Modified:
>Originator:     Wen Heping
>Release:        FreeBSD-8.0 Current
>Organization:
ChangAn Middle School
>Environment:
FreeBSD fb8.wenjing.com 8.0-CURRENT FreeBSD 8.0-CURRENT #1: Tue Dec 16 00:26:59 HKT 2008     root at fb8.wenjing.com:/usr/obj/usr/src/sys/GENERIC  i386
>Description:
p5-Bio-Graphics is a simple GD-based renderer (diagram drawer)
for DNA and protein sequences.

WWW: http://search.cpan.org/dist/Bio-Graphics/
>How-To-Repeat:

>Fix:


Patch attached with submission follows:

# This is a shell archive.  Save it in a file, remove anything before
# this line, and then unpack it by entering "sh file".  Note, it may
# create directories; files and directories will be owned by you and
# have default permissions.
#
# This archive contains:
#
#	p5-Bio-Graphics
#	p5-Bio-Graphics/pkg-descr
#	p5-Bio-Graphics/distinfo
#	p5-Bio-Graphics/Makefile
#	p5-Bio-Graphics/pkg-plist
#
echo c - p5-Bio-Graphics
mkdir -p p5-Bio-Graphics > /dev/null 2>&1
echo x - p5-Bio-Graphics/pkg-descr
sed 's/^X//' >p5-Bio-Graphics/pkg-descr << 'd989abcfc569579b9f3397021e3d6c89'
Xp5-Bio-Graphics is a simple GD-based renderer (diagram drawer)
Xfor DNA and protein sequences.
X
XWWW: http://search.cpan.org/dist/Bio-Graphics/
d989abcfc569579b9f3397021e3d6c89
echo x - p5-Bio-Graphics/distinfo
sed 's/^X//' >p5-Bio-Graphics/distinfo << 'ad30b60139483b8140fdb6751ce662a3'
XMD5 (Bio-Graphics-1.84.tar.gz) = ff4e72484d345d5d711b80606426faff
XSHA256 (Bio-Graphics-1.84.tar.gz) = f255268a98fee1bdc8a4e5be4802ff3fd7e1c47c6a6eb76c9ec651425b9e6caa
XSIZE (Bio-Graphics-1.84.tar.gz) = 553114
ad30b60139483b8140fdb6751ce662a3
echo x - p5-Bio-Graphics/Makefile
sed 's/^X//' >p5-Bio-Graphics/Makefile << 'cdeb4a889d07444f8d8e82df21a82319'
X# New ports collection makefile for:	p5-Bio-Graphics
X# Date created:				30 Dec 2008
X# Whom:					Wen Heping <wenheping at gmail.com>
X#
X# $FreeBSD$
X#
X
XPORTNAME=	Bio-Graphics
XPORTVERSION=	1.84
XCATEGORIES=	biology perl5
XMASTER_SITES=	CPAN
XPKGNAMEPREFIX=	p5-
X
XMAINTAINER=	wenheping at gmail.com
XCOMMENT=	Generate GD Images of Bio::Seq Objects
X
XBUILD_DEPENDS=	p5-GD>=2.3:${PORTSDIR}/graphics/p5-GD \
X		p5-GD-SVG>=0:${PORTSDIR}/graphics/p5-GD-SVG \
X		p5-bioperl>=1.6.0:${PORTSDIR}/biology/p5-bioperl \
X		p5-Text-ParseWords>=0:${PORTSDIR}/textproc/p5-Text-ParseWords \
X		p5-ExtUtils-MakeMaker>=0:${PORTSDIR}/devel/p5-ExtUtils-MakeMaker
XRUN_DEPENDS=	${BUILD_DEPENDS}
X
XPERL_MODBUILD=	YES
X
XMAN1=	contig_draw.pl.1 feature_draw.pl.1 \
X	frend.pl.1 search_overview.pl.1
X
XMAN3=	Bio::Graphics.3 \
X	Bio::Graphics::Glyph::transcript2.3 \
X	Bio::Graphics::Glyph::extending_arrow.3 \
X	Bio::Graphics::Wiggle.3 \
X	Bio::Graphics::ConfiguratorI.3 \
X	Bio::Graphics::DrawTransmembrane.3 \
X	Bio::Graphics::Feature.3 \
X	Bio::Graphics::FeatureBase.3 \
X	Bio::Graphics::FeatureFile.3 \
X	Bio::Graphics::FeatureFile::Iterator.3 \
X	Bio::Graphics::Glyph.3 \
X	Bio::Graphics::Glyph::Factory.3 \
X	Bio::Graphics::Glyph::alignment.3 \
X	Bio::Graphics::Glyph::anchored_arrow.3 \
X	Bio::Graphics::Glyph::arrow.3 \
X	Bio::Graphics::Glyph::box.3 \
X	Bio::Graphics::Glyph::broken_line.3 \
X	Bio::Graphics::Glyph::cds.3 \
X	Bio::Graphics::Glyph::christmas_arrow.3 \
X	Bio::Graphics::Glyph::crossbox.3 \
X	Bio::Graphics::Glyph::dashed_line.3 \
X	Bio::Graphics::Glyph::diamond.3 \
X	Bio::Graphics::Glyph::dna.3 \
X	Bio::Graphics::Glyph::dot.3 \
X	Bio::Graphics::Glyph::dumbbell.3 \
X	Bio::Graphics::Glyph::ellipse.3 \
X	Bio::Graphics::Glyph::ex.3 \
X	Bio::Graphics::Glyph::fixedwidth.3 \
X	Bio::Graphics::Glyph::flag.3 \
X	Bio::Graphics::Glyph::gene.3 \
X	Bio::Graphics::Glyph::generic.3 \
X	Bio::Graphics::Glyph::graded_segments.3 \
X	Bio::Graphics::Glyph::group.3 \
X	Bio::Graphics::Glyph::heat_map.3 \
X	Bio::Graphics::Glyph::heat_map_ideogram.3 \
X	Bio::Graphics::Glyph::heterogeneous_segments.3 \
X	Bio::Graphics::Glyph::ideogram.3 \
X	Bio::Graphics::Glyph::image.3 \
X	Bio::Graphics::Glyph::lightning.3 \
X	Bio::Graphics::Glyph::line.3 \
X	Bio::Graphics::Glyph::merge_parts.3 \
X	Bio::Graphics::Glyph::merged_alignment.3 \
X	Bio::Graphics::Glyph::minmax.3 \
X	Bio::Graphics::Glyph::oval.3 \
X	Bio::Graphics::Glyph::pentagram.3 \
X	Bio::Graphics::Glyph::phylo_align.3 \
X	Bio::Graphics::Glyph::pinsertion.3 \
X	Bio::Graphics::Glyph::primers.3 \
X	Bio::Graphics::Glyph::processed_transcript.3 \
X	Bio::Graphics::Glyph::protein.3 \
X	Bio::Graphics::Glyph::ragged_ends.3 \
X	Bio::Graphics::Glyph::redgreen_box.3 \
X	Bio::Graphics::Glyph::redgreen_segment.3 \
X	Bio::Graphics::Glyph::repeating_shape.3 \
X	Bio::Graphics::Glyph::rndrect.3 \
X	Bio::Graphics::Glyph::ruler_arrow.3 \
X	Bio::Graphics::Glyph::saw_teeth.3 \
X	Bio::Graphics::Glyph::segmented_keyglyph.3 \
X	Bio::Graphics::Glyph::segments.3 \
X	Bio::Graphics::Glyph::so_transcript.3 \
X	Bio::Graphics::Glyph::span.3 \
X	Bio::Graphics::Glyph::spectrogram.3 \
X	Bio::Graphics::Glyph::splice_site.3 \
X	Bio::Graphics::Glyph::stackedplot.3 \
X	Bio::Graphics::Glyph::ternary_plot.3 \
X	Bio::Graphics::Glyph::text_in_box.3 \
X	Bio::Graphics::Glyph::three_letters.3 \
X	Bio::Graphics::Glyph::tic_tac_toe.3 \
X	Bio::Graphics::Glyph::toomany.3 \
X	Bio::Graphics::Glyph::trace.3 \
X	Bio::Graphics::Glyph::track.3 \
X	Bio::Graphics::Glyph::transcript.3 \
X	Bio::Graphics::Glyph::translation.3 \
X	Bio::Graphics::Glyph::triangle.3 \
X	Bio::Graphics::Glyph::two_bolts.3 \
X	Bio::Graphics::Glyph::wave.3 \
X	Bio::Graphics::Glyph::weighted_arrow.3 \
X	Bio::Graphics::Glyph::whiskerplot.3 \
X	Bio::Graphics::Glyph::wiggle_box.3 \
X	Bio::Graphics::Glyph::wiggle_density.3 \
X	Bio::Graphics::Glyph::wiggle_xyplot.3 \
X	Bio::Graphics::Glyph::xyplot.3 \
X	Bio::Graphics::Panel.3 \
X	Bio::Graphics::Pictogram.3 \
X	Bio::Graphics::RendererI.3 \
X	Bio::Graphics::Util.3 \
X	Bio::Graphics::Wiggle::Loader.3
X
X.include <bsd.port.mk>
cdeb4a889d07444f8d8e82df21a82319
echo x - p5-Bio-Graphics/pkg-plist
sed 's/^X//' >p5-Bio-Graphics/pkg-plist << '1a29934e6c70ec6a809153cfc3de9a56'
Xbin/contig_draw.pl
Xbin/feature_draw.pl
Xbin/frend.pl
Xbin/render_msa.pl
Xbin/search_overview.pl
X%%SITE_PERL%%/Bio/Graphics/FeatureFile/Iterator.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/phylo_align.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/spectrogram.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/ideogram.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/heat_map.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/smoothing.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/stackedplot.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/trace.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/wiggle_density.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/fixedwidth.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/wiggle_box.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/ternary_plot.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/wiggle_xyplot.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/heat_map_ideogram.pm
X%%SITE_PERL%%/Bio/Graphics/Wiggle/Loader.pm
X%%SITE_PERL%%/Bio/Graphics/DrawTransmembrane.pm
X%%SITE_PERL%%/Bio/Graphics/FeatureBase.pm
X%%SITE_PERL%%/Bio/Graphics/RendererI.pm
X%%SITE_PERL%%/Bio/Graphics/Util.pm
X%%SITE_PERL%%/Bio/Graphics/Pictogram.pm
X%%SITE_PERL%%/Bio/Graphics/ConfiguratorI.pm
X%%SITE_PERL%%/Bio/Graphics/FeatureFile.pm
X%%SITE_PERL%%/Bio/Graphics/Feature.pm
X%%SITE_PERL%%/Bio/Graphics/Panel.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph.pm
X%%SITE_PERL%%/Bio/Graphics.pm
X%%SITE_PERL%%/Bio/Graphics/Wiggle.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/track.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/generic.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/saw_teeth.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/pentagram.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/image.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/christmas_arrow.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/flag.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/broken_line.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/ellipse.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/cds.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/protein.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/repeating_shape.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/graded_segments.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/merge_parts.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/weighted_arrow.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/splice_site.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/wave.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/xyplot.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/gene.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/ragged_ends.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/segments.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/ex.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/crossbox.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/lightning.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/merged_alignment.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/ruler_arrow.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/rndrect.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/span.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/pinsertion.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/two_bolts.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/primers.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/diamond.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/dna.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/dumbbell.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/box.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/toomany.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/minmax.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/whiskerplot.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/redgreen_box.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/alignment.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/triangle.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/tic_tac_toe.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/transcript2.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/text_in_box.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/group.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/translation.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/three_letters.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/line.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/heterogeneous_segments.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/extending_arrow.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/transcript.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/oval.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/arrow.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/dashed_line.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/dot.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/Factory.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/so_transcript.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/processed_transcript.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/segmented_keyglyph.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/anchored_arrow.pm
X%%SITE_PERL%%/Bio/Graphics/Glyph/redgreen_segment.pm
X at dirrm %%SITE_PERL%%/Bio/Graphics/FeatureFile
X at dirrm %%SITE_PERL%%/Bio/Graphics/Wiggle
X at dirrm %%SITE_PERL%%/Bio/Graphics/Glyph
X at dirrmtry %%SITE_PERL%%/Bio/Graphics
1a29934e6c70ec6a809153cfc3de9a56
exit



>Release-Note:
>Audit-Trail:
>Unformatted:

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