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Date:      Fri, 7 Dec 2018 00:10:06 +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: r486812 - in head/biology: . groopm
Message-ID:  <201812070010.wB70A6D7063225@repo.freebsd.org>

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Author: yuri
Date: Fri Dec  7 00:10:05 2018
New Revision: 486812
URL: https://svnweb.freebsd.org/changeset/ports/486812

Log:
  New port: math/groopm: Metagenomic binning suite

Added:
  head/biology/groopm/
  head/biology/groopm/Makefile   (contents, props changed)
  head/biology/groopm/distinfo   (contents, props changed)
  head/biology/groopm/pkg-descr   (contents, props changed)
Modified:
  head/biology/Makefile

Modified: head/biology/Makefile
==============================================================================
--- head/biology/Makefile	Fri Dec  7 00:04:10 2018	(r486811)
+++ head/biology/Makefile	Fri Dec  7 00:10:05 2018	(r486812)
@@ -42,6 +42,7 @@
     SUBDIR += gmap
     SUBDIR += gperiodic
     SUBDIR += grappa
+    SUBDIR += groopm
     SUBDIR += hmmer
     SUBDIR += htslib
     SUBDIR += hyphy

Added: head/biology/groopm/Makefile
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/biology/groopm/Makefile	Fri Dec  7 00:10:05 2018	(r486812)
@@ -0,0 +1,24 @@
+# $FreeBSD$
+
+PORTNAME=	GroopM
+DISTVERSION=	0.3.4
+CATEGORIES=	biology python
+MASTER_SITES=	CHEESESHOP
+
+MAINTAINER=	yuri@FreeBSD.org
+COMMENT=	Metagenomic binning suite
+
+LICENSE=	GPLv3
+LICENSE_FILE=	${WRKSRC}/LICENSE.txt
+
+RUN_DEPENDS=	${PYNUMPY} \
+		${PYTHON_PKGNAMEPREFIX}matplotlib>=1.1.0:math/py-matplotlib@${PY_FLAVOR} \
+		${PYTHON_PKGNAMEPREFIX}scipy>=0.10.1:science/py-scipy@${PY_FLAVOR} \
+		${PYTHON_PKGNAMEPREFIX}tables>=2.3:devel/py-tables@${PY_FLAVOR}
+
+USES=		python
+USE_PYTHON=	distutils noflavors autoplist
+
+NO_ARCH=	yes
+
+.include <bsd.port.mk>

Added: head/biology/groopm/distinfo
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/biology/groopm/distinfo	Fri Dec  7 00:10:05 2018	(r486812)
@@ -0,0 +1,3 @@
+TIMESTAMP = 1544140602
+SHA256 (GroopM-0.3.4.tar.gz) = 48bdaeb9010e7d81785697a55edc394ef36c2646b310d625a24bec740f1b6080
+SIZE (GroopM-0.3.4.tar.gz) = 127707

Added: head/biology/groopm/pkg-descr
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/biology/groopm/pkg-descr	Fri Dec  7 00:10:05 2018	(r486812)
@@ -0,0 +1,7 @@
+GroopM is a metagenomic binning toolset. It leverages spatio-temoral
+dynamics (differential coverage) to accurately (and almost automatically)
+extract population genomes from multi-sample metagenomic datasets.
+
+GroopM is largely parameter-free. Use: groopm -h for more info.
+
+WWW: http://ecogenomics.github.io/GroopM/



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