Date: Tue, 25 Sep 2012 08:06:43 +0000 (UTC) From: Ruslan Mahmatkhanov <rm@FreeBSD.org> To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r304822 - head/biology/py-biopython Message-ID: <201209250806.q8P86hDn091397@svn.freebsd.org>
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Author: rm Date: Tue Sep 25 08:06:42 2012 New Revision: 304822 URL: http://svn.freebsd.org/changeset/ports/304822 Log: - update to 1.60 while here: - convert Makefile header into two-line format - update COMMENT (indefinite article removed) - change USE_PYTHON to just -2.7 - remove py-reportlab from BUILD_DEPENDS and kick PYTHON_SITELIBDIR from there - tab -> space change in pkg-descr:WWW PR: 171115 Submitted by: wen Approved by: Mauricio Herrera Cuadra <mauricio at arareko dot net> (maintainer) Modified: head/biology/py-biopython/Makefile head/biology/py-biopython/distinfo head/biology/py-biopython/pkg-descr head/biology/py-biopython/pkg-plist Modified: head/biology/py-biopython/Makefile ============================================================================== --- head/biology/py-biopython/Makefile Tue Sep 25 07:58:59 2012 (r304821) +++ head/biology/py-biopython/Makefile Tue Sep 25 08:06:42 2012 (r304822) @@ -1,29 +1,24 @@ -# New ports collection makefile for: py-biopython -# Date created: 28 July 2000 -# Whom: Johann Visagie <johann@egenetics.com> -# +# Created by: Johann Visagie <johann@egenetics.com> # $FreeBSD$ -# PORTNAME= biopython -PORTVERSION= 1.59 +PORTVERSION= 1.60 CATEGORIES= biology python MASTER_SITES= http://www.biopython.org/DIST/ PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} MAINTAINER= mauricio@arareko.net -COMMENT= A collection of Python modules for bioinformatics +COMMENT= Collection of Python modules for bioinformatics BUILD_DEPENDS= ${PYNUMPY} RUN_DEPENDS= ${PYNUMPY} -USE_PYTHON= 2.5-2.7 +USE_PYTHON= -2.7 USE_PYDISTUTILS= easy_install PYEASYINSTALL_ARCHDEP= yes .if !defined(WITHOUT_REPORTLAB) -BUILD_DEPENDS+= ${PYTHON_SITELIBDIR}/reportlab/__init__.py:${PORTSDIR}/print/py-reportlab -RUN_DEPENDS+= ${PYTHON_SITELIBDIR}/reportlab/__init__.py:${PORTSDIR}/print/py-reportlab +RUN_DEPENDS+= ${PYTHON_PKGNAMEPREFIX}reportlab>0:${PORTSDIR}/print/py-reportlab .endif .include <bsd.port.mk> Modified: head/biology/py-biopython/distinfo ============================================================================== --- head/biology/py-biopython/distinfo Tue Sep 25 07:58:59 2012 (r304821) +++ head/biology/py-biopython/distinfo Tue Sep 25 08:06:42 2012 (r304822) @@ -1,2 +1,2 @@ -SHA256 (biopython-1.59.tar.gz) = 588abf55de3d8e4deac611a0f810a9c5d9ce7e5868d3064f79efe6cabd18cacb -SIZE (biopython-1.59.tar.gz) = 8577492 +SHA256 (biopython-1.60.tar.gz) = 73a2e6d700c8735832b6fc15dd08a9baa4136b072ff18760b9d22f563579d733 +SIZE (biopython-1.60.tar.gz) = 9501707 Modified: head/biology/py-biopython/pkg-descr ============================================================================== --- head/biology/py-biopython/pkg-descr Tue Sep 25 07:58:59 2012 (r304821) +++ head/biology/py-biopython/pkg-descr Tue Sep 25 08:06:42 2012 (r304822) @@ -12,5 +12,4 @@ stable. This port includes optional support for Biopython-CORBA, a CORBA interface built to the BioCorba standard (http://biocorba.org/). -Authors: <biopython-dev@biopython.org> -WWW: http://biopython.org/ +WWW: http://biopython.org/ Modified: head/biology/py-biopython/pkg-plist ============================================================================== --- head/biology/py-biopython/pkg-plist Tue Sep 25 07:58:59 2012 (r304821) +++ head/biology/py-biopython/pkg-plist Tue Sep 25 08:06:42 2012 (r304822) @@ -1,12 +1,3 @@ -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/_py3k.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/_py3k.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/_py3k.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/cpairwise2.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/cpairwise2.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/cpairwise2.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/trie.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/trie.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/trie.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Affy/CelFile.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Affy/CelFile.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Affy/CelFile.pyo @@ -112,10 +103,10 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Cluster/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Cluster/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Cluster/__init__.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Cluster/cluster.so %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Cluster/cluster.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Cluster/cluster.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Cluster/cluster.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Cluster/cluster.so %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Compass/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Compass/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Compass/__init__.pyo @@ -367,15 +358,15 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GA/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GA/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GA/__init__.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/__init__.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/__init__.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/__init__.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/Record.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/Record.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/Record.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/Scanner.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/Scanner.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/Scanner.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/__init__.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/__init__.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/__init__.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/utils.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/utils.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/GenBank/utils.pyo @@ -460,10 +451,10 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/KDTree.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/KDTree.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/KDTree.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/_CKDTree.so %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/_CKDTree.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/_CKDTree.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/_CKDTree.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/_CKDTree.so %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/KDTree/__init__.pyo @@ -491,9 +482,6 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Medline/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Medline/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Medline/__init__.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/_pwm.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/_pwm.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/_pwm.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/Applications/_AlignAce.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/Applications/_AlignAce.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/Applications/_AlignAce.pyo @@ -521,6 +509,9 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/__init__.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/_pwm.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/_pwm.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/_pwm.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Motif/_pwm.so %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/NMR/NOEtools.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/NMR/NOEtools.pyc @@ -579,37 +570,10 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Nexus/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Nexus/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Nexus/__init__.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Nexus/cnexus.so %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Nexus/cnexus.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Nexus/cnexus.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Nexus/cnexus.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/__init__.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/__init__.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/__init__.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_baseml.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_baseml.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_baseml.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_codeml.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_codeml.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_codeml.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_yn00.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_yn00.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_yn00.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_paml.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_paml.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_paml.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/baseml.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/baseml.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/baseml.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/chi2.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/chi2.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/chi2.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/codeml.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/codeml.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/codeml.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/yn00.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/yn00.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/yn00.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Nexus/cnexus.so %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/AbstractPropertyMap.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/AbstractPropertyMap.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/AbstractPropertyMap.pyo @@ -694,6 +658,10 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/__init__.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/mmCIF/MMCIFlex.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/mmCIF/MMCIFlex.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/mmCIF/MMCIFlex.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/mmCIF/MMCIFlex.so %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/mmCIF/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/mmCIF/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/PDB/mmCIF/__init__.pyo @@ -718,12 +686,15 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Pathway/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Pathway/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Pathway/__init__.pyo -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/__init__.py -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/__init__.pyc -%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/__init__.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/_Phyml.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/_Phyml.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/_Phyml.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/_Raxml.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/_Raxml.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/_Raxml.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/__init__.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/__init__.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/Applications/__init__.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/BaseTree.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/BaseTree.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/BaseTree.pyo @@ -736,6 +707,33 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/NexusIO.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/NexusIO.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/NexusIO.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/__init__.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/__init__.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/__init__.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_paml.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_paml.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_paml.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_baseml.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_baseml.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_baseml.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_codeml.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_codeml.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_codeml.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_yn00.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_yn00.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/_parse_yn00.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/baseml.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/baseml.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/baseml.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/chi2.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/chi2.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/chi2.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/codeml.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/codeml.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/codeml.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/yn00.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/yn00.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PAML/yn00.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PhyloXML.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PhyloXML.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/Phylo/PhyloXML.pyo @@ -863,6 +861,9 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/SCOP/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/SCOP/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/SCOP/__init__.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/SCOP/three_to_one_dict.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/SCOP/three_to_one_dict.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/SCOP/three_to_one_dict.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/SVDSuperimposer/SVDSuperimposer.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/SVDSuperimposer/SVDSuperimposer.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/SVDSuperimposer/SVDSuperimposer.pyo @@ -1016,6 +1017,15 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/__init__.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/__init__.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/__init__.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/_py3k.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/_py3k.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/_py3k.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/bgzf.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/bgzf.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/bgzf.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/cpairwise2.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/cpairwise2.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/cpairwise2.pyo %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/cpairwise2.so %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/kNN.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/kNN.pyc @@ -1023,6 +1033,9 @@ %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/pairwise2.py %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/pairwise2.pyc %%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/pairwise2.pyo +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/trie.py +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/trie.pyc +%%PYTHON_SITELIBDIR%%/%%PYEASYINSTALL_EGG%%/Bio/trie.pyo 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