Add p5-Bio-FeatureIO 1.6.905

Bio::FeatureIO is an iterator subsystem for genomic sequence features.

Bio::FeatureIO is a handler module for the formats in the FeatureIO set (eg,
Bio::FeatureIO::GFF). It is the officially sanctioned way of getting at the
format objects, which most people should use.

The Bio::FeatureIO system can be thought of like biological file handles. They
are attached to filehandles with smart formatting rules (eg, GFF format, or BED
format) and can either read or write feature objects (Bio::SeqFeature objects,
or more correctly, Bio::FeatureHolderI implementing objects, of which
Bio::SeqFeature is one such object). If you want to know what to do with a
Bio::SeqFeatureI object, read Bio::SeqFeatureI.

The idea is that you request a stream object for a particular format. All the
stream objects have a notion of an internal file that is read from or written
to. A particular FeatureIO object instance is configured for either input or
output. A specific example of a stream object is the Bio::FeatureIO::gff object.

WWW: http://search.cpan.org/dist/Bio-FeatureIO/

5 files changed, 67 insertions, 0 deletions

diff --git a/biology/Makefile b/biology/Makefile
index e9f524296acc..98c0bb8296fd 100644
--- a/biology/Makefile
+++ b/biology/Makefile
@@ -60,6 +60,7 @@
     SUBDIR += p5-Bio-Coordinate
     SUBDIR += p5-Bio-Das
     SUBDIR += p5-Bio-Das-Lite
+    SUBDIR += p5-Bio-FeatureIO
     SUBDIR += p5-Bio-GFF3
     SUBDIR += p5-Bio-Glite
     SUBDIR += p5-Bio-Graphics
diff --git a/biology/p5-Bio-FeatureIO/Makefile b/biology/p5-Bio-FeatureIO/Makefile
new file mode 100644
index 000000000000..2f85c893b768
--- /dev/null
+++ b/biology/p5-Bio-FeatureIO/Makefile
@@ -0,0 +1,28 @@
+# Created by: Po-Chuan Hsieh <sunpoet@FreeBSD.org>
+# $FreeBSD$
+
+PORTNAME=	Bio-FeatureIO
+PORTVERSION=	1.6.905
+CATEGORIES=	biology perl5
+MASTER_SITES=	CPAN
+PKGNAMEPREFIX=	p5-
+
+MAINTAINER=	sunpoet@FreeBSD.org
+COMMENT=	Handler for FeatureIO
+
+LICENSE=	ART10 GPLv1+
+LICENSE_COMB=	dual
+LICENSE_FILE=	${WRKSRC}/LICENSE
+
+BUILD_DEPENDS=	p5-BioPerl>=0:biology/p5-BioPerl \
+		p5-Tree-DAG_Node>=0:devel/p5-Tree-DAG_Node \
+		p5-URI>=0:net/p5-URI \
+		p5-XML-DOM>=0:textproc/p5-XML-DOM \
+		p5-XML-DOM-XPath>=0:textproc/p5-XML-DOM-XPath
+RUN_DEPENDS:=	${BUILD_DEPENDS}
+
+NO_ARCH=	yes
+USE_PERL5=	configure
+USES=		perl5
+
+.include <bsd.port.mk>
diff --git a/biology/p5-Bio-FeatureIO/distinfo b/biology/p5-Bio-FeatureIO/distinfo
new file mode 100644
index 000000000000..35d83d252f57
--- /dev/null
+++ b/biology/p5-Bio-FeatureIO/distinfo
@@ -0,0 +1,3 @@
+TIMESTAMP = 1505488503
+SHA256 (Bio-FeatureIO-1.6.905.tar.gz) = 322e5757b374f2fb90b8f20bdbdc75631f5cb4d122f81a4d35c3a177cf950c7a
+SIZE (Bio-FeatureIO-1.6.905.tar.gz) = 54906
diff --git a/biology/p5-Bio-FeatureIO/pkg-descr b/biology/p5-Bio-FeatureIO/pkg-descr
new file mode 100644
index 000000000000..dbeef47cb191
--- /dev/null
+++ b/biology/p5-Bio-FeatureIO/pkg-descr
@@ -0,0 +1,19 @@
+Bio::FeatureIO is an iterator subsystem for genomic sequence features.
+
+Bio::FeatureIO is a handler module for the formats in the FeatureIO set (eg,
+Bio::FeatureIO::GFF). It is the officially sanctioned way of getting at the
+format objects, which most people should use.
+
+The Bio::FeatureIO system can be thought of like biological file handles. They
+are attached to filehandles with smart formatting rules (eg, GFF format, or BED
+format) and can either read or write feature objects (Bio::SeqFeature objects,
+or more correctly, Bio::FeatureHolderI implementing objects, of which
+Bio::SeqFeature is one such object). If you want to know what to do with a
+Bio::SeqFeatureI object, read Bio::SeqFeatureI.
+
+The idea is that you request a stream object for a particular format. All the
+stream objects have a notion of an internal file that is read from or written
+to. A particular FeatureIO object instance is configured for either input or
+output. A specific example of a stream object is the Bio::FeatureIO::gff object.
+
+WWW: http://search.cpan.org/dist/Bio-FeatureIO/
diff --git a/biology/p5-Bio-FeatureIO/pkg-plist b/biology/p5-Bio-FeatureIO/pkg-plist
new file mode 100644
index 000000000000..00952b34ad92
--- /dev/null
+++ b/biology/p5-Bio-FeatureIO/pkg-plist
@@ -0,0 +1,16 @@
+%%SITE_PERL%%/Bio/FeatureIO.pm
+%%SITE_PERL%%/Bio/FeatureIO/bed.pm
+%%SITE_PERL%%/Bio/FeatureIO/gff.pm
+%%SITE_PERL%%/Bio/FeatureIO/gtf.pm
+%%SITE_PERL%%/Bio/FeatureIO/interpro.pm
+%%SITE_PERL%%/Bio/FeatureIO/ptt.pm
+%%SITE_PERL%%/Bio/FeatureIO/vecscreen_simple.pm
+%%SITE_PERL%%/Bio/SeqFeature/Annotated.pm
+%%PERL5_MAN3%%/Bio::FeatureIO.3.gz
+%%PERL5_MAN3%%/Bio::FeatureIO::bed.3.gz
+%%PERL5_MAN3%%/Bio::FeatureIO::gff.3.gz
+%%PERL5_MAN3%%/Bio::FeatureIO::gtf.3.gz
+%%PERL5_MAN3%%/Bio::FeatureIO::interpro.3.gz
+%%PERL5_MAN3%%/Bio::FeatureIO::ptt.3.gz
+%%PERL5_MAN3%%/Bio::FeatureIO::vecscreen_simple.3.gz
+%%PERL5_MAN3%%/Bio::SeqFeature::Annotated.3.gz