Date: Sat, 2 Dec 2017 20:46:28 +0000 (UTC) From: "Jason W. Bacon" <jwb@FreeBSD.org> To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r455383 - in head/biology: . py-macs2 Message-ID: <201712022046.vB2KkS4N051579@repo.freebsd.org>
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Author: jwb Date: Sat Dec 2 20:46:28 2017 New Revision: 455383 URL: https://svnweb.freebsd.org/changeset/ports/455383 Log: [new port] biology/py-macs2: Analysis of chromatin immunoprecipitation (ChIP) sequences Approved by: jrm (mentor) Differential Revision: https://reviews.freebsd.org/D13322 Added: head/biology/py-macs2/ head/biology/py-macs2/Makefile (contents, props changed) head/biology/py-macs2/distinfo (contents, props changed) head/biology/py-macs2/pkg-descr (contents, props changed) Modified: head/biology/Makefile Modified: head/biology/Makefile ============================================================================== --- head/biology/Makefile Sat Dec 2 20:44:28 2017 (r455382) +++ head/biology/Makefile Sat Dec 2 20:46:28 2017 (r455383) @@ -88,6 +88,7 @@ SUBDIR += py-biopython SUBDIR += py-bx-python SUBDIR += py-cutadapt + SUBDIR += py-macs2 SUBDIR += py-pysam SUBDIR += pycogent SUBDIR += pyfasta Added: head/biology/py-macs2/Makefile ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/py-macs2/Makefile Sat Dec 2 20:46:28 2017 (r455383) @@ -0,0 +1,31 @@ +# $FreeBSD$ + +PORTNAME= macs2 +PORTVERSION= 2.1.0.p20170505 +CATEGORIES= biology python +PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} + +MAINTAINER= jwb@FreeBSD.org +COMMENT= Analysis of chromatin immunoprecipitation (ChIP) sequences + +LICENSE= BSD3CLAUSE +LICENSE_FILE= ${WRKSRC}/COPYING + +BUILD_DEPENDS= ${PYTHON_PKGNAMEPREFIX}numpy>0:math/py-numpy@${PY_FLAVOR} + +USES= python +USE_PYTHON= autoplist concurrent cython distutils + +USE_GITHUB= yes +GH_ACCOUNT= taoliu +GH_PROJECT= MACS +GH_TAGNAME= 6946b2f + +PYSETUP= setup_w_cython.py + +post-stage: + ${STRIP_CMD} \ + ${STAGEDIR}${PYTHON_SITELIBDIR}/MACS2/*.so \ + ${STAGEDIR}${PYTHON_SITELIBDIR}/MACS2/*/*.so + +.include <bsd.port.mk> Added: head/biology/py-macs2/distinfo ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/py-macs2/distinfo Sat Dec 2 20:46:28 2017 (r455383) @@ -0,0 +1,3 @@ +TIMESTAMP = 1512241922 +SHA256 (taoliu-MACS-2.1.0.p20170505-6946b2f_GH0.tar.gz) = c6e4fb8b69b955134399fcdfc075cea5fbc29fabbc46cc4e9acdedeb1174fcfd +SIZE (taoliu-MACS-2.1.0.p20170505-6946b2f_GH0.tar.gz) = 159560613 Added: head/biology/py-macs2/pkg-descr ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/py-macs2/pkg-descr Sat Dec 2 20:46:28 2017 (r455383) @@ -0,0 +1,6 @@ +MACS is a tool for chromatin immunoprecipitation (ChIP) sequence analysis. +MACS empirically models the length of the sequenced ChIP fragments, which +tend to be shorter than sonication or library construction size estimates, +and uses it to improve the spatial resolution of predicted binding sites. + +WWW: https://github.com/taoliu/MACS
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