svn commit: r455383 - in head/biology: . py-macs2
Jason W. Bacon
jwb at FreeBSD.org
Sat Dec 2 20:46:29 UTC 2017
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 at 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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