Date: Fri, 19 Oct 2018 02:06:54 +0000 (UTC) From: Yuri Victorovich <yuri@FreeBSD.org> To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r482400 - in head/biology: . py-gffutils Message-ID: <201810190206.w9J26swg078053@repo.freebsd.org>
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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@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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