svn commit: r482400 - in head/biology: . py-gffutils
Yuri Victorovich
yuri at FreeBSD.org
Fri Oct 19 02:06:55 UTC 2018
Author: yuri
Date: Fri Oct 19 02:06:53 2018
New Revision: 482400
URL: https://svnweb.freebsd.org/changeset/ports/482400
Log:
New port: biology/py-gffutils: Work with GFF and GTF files in a flexible database framework
Added:
head/biology/py-gffutils/
head/biology/py-gffutils/Makefile (contents, props changed)
head/biology/py-gffutils/distinfo (contents, props changed)
head/biology/py-gffutils/pkg-descr (contents, props changed)
Modified:
head/biology/Makefile
Modified: head/biology/Makefile
==============================================================================
--- head/biology/Makefile Fri Oct 19 02:05:37 2018 (r482399)
+++ head/biology/Makefile Fri Oct 19 02:06:53 2018 (r482400)
@@ -104,6 +104,7 @@
SUBDIR += py-biopython
SUBDIR += py-bx-python
SUBDIR += py-cutadapt
+ SUBDIR += py-gffutils
SUBDIR += py-gtfparse
SUBDIR += py-loompy
SUBDIR += py-macs2
Added: head/biology/py-gffutils/Makefile
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/biology/py-gffutils/Makefile Fri Oct 19 02:06:53 2018 (r482400)
@@ -0,0 +1,25 @@
+# $FreeBSD$
+
+PORTNAME= gffutils
+DISTVERSION= 0.9
+CATEGORIES= biology python
+MASTER_SITES= CHEESESHOP
+PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
+
+MAINTAINER= yuri at FreeBSD.org
+COMMENT= Work with GFF and GTF files in a flexible database framework
+
+LICENSE= MIT
+
+RUN_DEPENDS= ${PYTHON_PKGNAMEPREFIX}argcomplete>0:devel/py-argcomplete@${PY_FLAVOR} \
+ ${PYTHON_PKGNAMEPREFIX}argh>0:devel/py-argh@${PY_FLAVOR} \
+ ${PYTHON_PKGNAMEPREFIX}pyfaidx>0:biology/py-pyfaidx@${PY_FLAVOR} \
+ ${PYTHON_PKGNAMEPREFIX}simplejson>0:devel/py-simplejson@${PY_FLAVOR} \
+ ${PYTHON_PKGNAMEPREFIX}six>0:devel/py-six@${PY_FLAVOR}
+
+USES= python
+USE_PYTHON= distutils concurrent autoplist
+
+NO_ARCH= yes
+
+.include <bsd.port.mk>
Added: head/biology/py-gffutils/distinfo
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/biology/py-gffutils/distinfo Fri Oct 19 02:06:53 2018 (r482400)
@@ -0,0 +1,3 @@
+TIMESTAMP = 1539913631
+SHA256 (gffutils-0.9.tar.gz) = e1b0bf2b422ec3491be13d77bf7baf71d274abd844e8f8b6c1217a95b236218b
+SIZE (gffutils-0.9.tar.gz) = 1537395
Added: head/biology/py-gffutils/pkg-descr
==============================================================================
--- /dev/null 00:00:00 1970 (empty, because file is newly added)
+++ head/biology/py-gffutils/pkg-descr Fri Oct 19 02:06:53 2018 (r482400)
@@ -0,0 +1,7 @@
+gffutils is a Python package for working with and manipulating the GFF and GTF
+format files typically used for genomic annotations. Files are loaded into a
+sqlite3 database, allowing much more complex manipulation of hierarchical
+features (e.g., genes, transcripts, and exons) than is possible with plain-text
+methods alone.
+
+WWW: https://github.com/daler/gffutils
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