Date: Mon, 8 Oct 2012 03:17:03 +0000 (UTC) From: Wen Heping <wen@FreeBSD.org> To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r305516 - head/biology/pycogent Message-ID: <201210080317.q983H3Xw018750@svn.freebsd.org>
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Author: wen Date: Mon Oct 8 03:17:02 2012 New Revision: 305516 URL: http://svn.freebsd.org/changeset/ports/305516 Log: - Update to 1.5.3 - Trim Makefile headers Modified: head/biology/pycogent/Makefile head/biology/pycogent/distinfo head/biology/pycogent/pkg-plist Modified: head/biology/pycogent/Makefile ============================================================================== --- head/biology/pycogent/Makefile Mon Oct 8 02:36:06 2012 (r305515) +++ head/biology/pycogent/Makefile Mon Oct 8 03:17:02 2012 (r305516) @@ -1,12 +1,8 @@ -# New ports collection makefile for: pycogent -# Date created: 20 June, 2009 -# Whom: Wen Heping <wenheping@gmail.com> -# +# Created by: Wen Heping <wenheping@gmail.com> # $FreeBSD$ -# PORTNAME= pycogent -PORTVERSION= 1.5.1 +PORTVERSION= 1.5.3 CATEGORIES= biology python MASTER_SITES= SF/${PORTNAME}/PyCogent/${PORTVERSION} DISTNAME= PyCogent-${PORTVERSION} Modified: head/biology/pycogent/distinfo ============================================================================== --- head/biology/pycogent/distinfo Mon Oct 8 02:36:06 2012 (r305515) +++ head/biology/pycogent/distinfo Mon Oct 8 03:17:02 2012 (r305516) @@ -1,2 +1,2 @@ -SHA256 (PyCogent-1.5.1.tgz) = 572345eb5f9ef0c4c5307145d27c2c69277dc7dffdbb772219532dce749513d7 -SIZE (PyCogent-1.5.1.tgz) = 3057837 +SHA256 (PyCogent-1.5.3.tgz) = ad883cf4f8bbedd797b934a6ba75a20df2313736e84bff3d5a0e54ac41ea425c +SIZE (PyCogent-1.5.3.tgz) = 3360039 Modified: head/biology/pycogent/pkg-plist ============================================================================== --- head/biology/pycogent/pkg-plist Mon Oct 8 02:36:06 2012 (r305515) +++ head/biology/pycogent/pkg-plist Mon Oct 8 03:17:02 2012 (r305516) @@ -25,9 +25,6 @@ %%PYTHON_SITELIBDIR%%/cogent/align/pairwise.py %%PYTHON_SITELIBDIR%%/cogent/align/pairwise.pyc %%PYTHON_SITELIBDIR%%/cogent/align/pairwise.pyo -%%PYTHON_SITELIBDIR%%/cogent/align/partial_order_graph.py -%%PYTHON_SITELIBDIR%%/cogent/align/partial_order_graph.pyc -%%PYTHON_SITELIBDIR%%/cogent/align/partial_order_graph.pyo %%PYTHON_SITELIBDIR%%/cogent/align/progressive.py %%PYTHON_SITELIBDIR%%/cogent/align/progressive.pyc %%PYTHON_SITELIBDIR%%/cogent/align/progressive.pyo @@ -52,6 +49,12 @@ %%PYTHON_SITELIBDIR%%/cogent/app/blast.py %%PYTHON_SITELIBDIR%%/cogent/app/blast.pyc %%PYTHON_SITELIBDIR%%/cogent/app/blast.pyo +%%PYTHON_SITELIBDIR%%/cogent/app/blat.py +%%PYTHON_SITELIBDIR%%/cogent/app/blat.pyc +%%PYTHON_SITELIBDIR%%/cogent/app/blat.pyo +%%PYTHON_SITELIBDIR%%/cogent/app/bwa.py +%%PYTHON_SITELIBDIR%%/cogent/app/bwa.pyc +%%PYTHON_SITELIBDIR%%/cogent/app/bwa.pyo %%PYTHON_SITELIBDIR%%/cogent/app/carnac.py %%PYTHON_SITELIBDIR%%/cogent/app/carnac.pyc %%PYTHON_SITELIBDIR%%/cogent/app/carnac.pyo @@ -103,6 +106,9 @@ %%PYTHON_SITELIBDIR%%/cogent/app/gctmpca.py %%PYTHON_SITELIBDIR%%/cogent/app/gctmpca.pyc %%PYTHON_SITELIBDIR%%/cogent/app/gctmpca.pyo +%%PYTHON_SITELIBDIR%%/cogent/app/guppy.py +%%PYTHON_SITELIBDIR%%/cogent/app/guppy.pyc +%%PYTHON_SITELIBDIR%%/cogent/app/guppy.pyo %%PYTHON_SITELIBDIR%%/cogent/app/ilm.py %%PYTHON_SITELIBDIR%%/cogent/app/ilm.pyc %%PYTHON_SITELIBDIR%%/cogent/app/ilm.pyo @@ -127,21 +133,33 @@ %%PYTHON_SITELIBDIR%%/cogent/app/muscle.py %%PYTHON_SITELIBDIR%%/cogent/app/muscle.pyc %%PYTHON_SITELIBDIR%%/cogent/app/muscle.pyo +%%PYTHON_SITELIBDIR%%/cogent/app/muscle_v38.py +%%PYTHON_SITELIBDIR%%/cogent/app/muscle_v38.pyc +%%PYTHON_SITELIBDIR%%/cogent/app/muscle_v38.pyo %%PYTHON_SITELIBDIR%%/cogent/app/nupack.py %%PYTHON_SITELIBDIR%%/cogent/app/nupack.pyc %%PYTHON_SITELIBDIR%%/cogent/app/nupack.pyo %%PYTHON_SITELIBDIR%%/cogent/app/parameters.py %%PYTHON_SITELIBDIR%%/cogent/app/parameters.pyc %%PYTHON_SITELIBDIR%%/cogent/app/parameters.pyo +%%PYTHON_SITELIBDIR%%/cogent/app/parsinsert.py +%%PYTHON_SITELIBDIR%%/cogent/app/parsinsert.pyc +%%PYTHON_SITELIBDIR%%/cogent/app/parsinsert.pyo %%PYTHON_SITELIBDIR%%/cogent/app/pfold.py %%PYTHON_SITELIBDIR%%/cogent/app/pfold.pyc %%PYTHON_SITELIBDIR%%/cogent/app/pfold.pyo %%PYTHON_SITELIBDIR%%/cogent/app/pknotsrg.py %%PYTHON_SITELIBDIR%%/cogent/app/pknotsrg.pyc %%PYTHON_SITELIBDIR%%/cogent/app/pknotsrg.pyo +%%PYTHON_SITELIBDIR%%/cogent/app/pplacer.py +%%PYTHON_SITELIBDIR%%/cogent/app/pplacer.pyc +%%PYTHON_SITELIBDIR%%/cogent/app/pplacer.pyo %%PYTHON_SITELIBDIR%%/cogent/app/raxml.py %%PYTHON_SITELIBDIR%%/cogent/app/raxml.pyc %%PYTHON_SITELIBDIR%%/cogent/app/raxml.pyo +%%PYTHON_SITELIBDIR%%/cogent/app/raxml_v730.py +%%PYTHON_SITELIBDIR%%/cogent/app/raxml_v730.pyc +%%PYTHON_SITELIBDIR%%/cogent/app/raxml_v730.pyo %%PYTHON_SITELIBDIR%%/cogent/app/rdp_classifier.py %%PYTHON_SITELIBDIR%%/cogent/app/rdp_classifier.pyc %%PYTHON_SITELIBDIR%%/cogent/app/rdp_classifier.pyo @@ -160,6 +178,9 @@ %%PYTHON_SITELIBDIR%%/cogent/app/rnaview.py %%PYTHON_SITELIBDIR%%/cogent/app/rnaview.pyc %%PYTHON_SITELIBDIR%%/cogent/app/rnaview.pyo +%%PYTHON_SITELIBDIR%%/cogent/app/rtax.py +%%PYTHON_SITELIBDIR%%/cogent/app/rtax.pyc +%%PYTHON_SITELIBDIR%%/cogent/app/rtax.pyo %%PYTHON_SITELIBDIR%%/cogent/app/sfffile.py %%PYTHON_SITELIBDIR%%/cogent/app/sfffile.pyc %%PYTHON_SITELIBDIR%%/cogent/app/sfffile.pyo @@ -178,6 +199,9 @@ %%PYTHON_SITELIBDIR%%/cogent/app/unafold.py %%PYTHON_SITELIBDIR%%/cogent/app/unafold.pyc %%PYTHON_SITELIBDIR%%/cogent/app/unafold.pyo +%%PYTHON_SITELIBDIR%%/cogent/app/usearch.py +%%PYTHON_SITELIBDIR%%/cogent/app/usearch.pyc +%%PYTHON_SITELIBDIR%%/cogent/app/usearch.pyo %%PYTHON_SITELIBDIR%%/cogent/app/util.py %%PYTHON_SITELIBDIR%%/cogent/app/util.pyc %%PYTHON_SITELIBDIR%%/cogent/app/util.pyo @@ -337,6 +361,9 @@ %%PYTHON_SITELIBDIR%%/cogent/draw/dinuc.py %%PYTHON_SITELIBDIR%%/cogent/draw/dinuc.pyc %%PYTHON_SITELIBDIR%%/cogent/draw/dinuc.pyo +%%PYTHON_SITELIBDIR%%/cogent/draw/distribution_plots.py +%%PYTHON_SITELIBDIR%%/cogent/draw/distribution_plots.pyc +%%PYTHON_SITELIBDIR%%/cogent/draw/distribution_plots.pyo %%PYTHON_SITELIBDIR%%/cogent/draw/dotplot.py %%PYTHON_SITELIBDIR%%/cogent/draw/dotplot.pyc %%PYTHON_SITELIBDIR%%/cogent/draw/dotplot.pyo @@ -418,6 +445,9 @@ %%PYTHON_SITELIBDIR%%/cogent/format/alignment.py %%PYTHON_SITELIBDIR%%/cogent/format/alignment.pyc %%PYTHON_SITELIBDIR%%/cogent/format/alignment.pyo +%%PYTHON_SITELIBDIR%%/cogent/format/bedgraph.py +%%PYTHON_SITELIBDIR%%/cogent/format/bedgraph.pyc +%%PYTHON_SITELIBDIR%%/cogent/format/bedgraph.pyo %%PYTHON_SITELIBDIR%%/cogent/format/clustal.py %%PYTHON_SITELIBDIR%%/cogent/format/clustal.pyc %%PYTHON_SITELIBDIR%%/cogent/format/clustal.pyo
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