rpms/python-biopython/F-11 python-biopython-1.51-enable-flex.patch, NONE, 1.1 .cvsignore, 1.7, 1.8 python-biopython.spec, 1.15, 1.16 sources, 1.7, 1.8

[alexlan]

Author: alexlan

Update of /cvs/extras/rpms/python-biopython/F-11
In directory cvs1.fedora.phx.redhat.com:/tmp/cvs-serv15343

Modified Files:
	.cvsignore python-biopython.spec sources 
Added Files:
	python-biopython-1.51-enable-flex.patch 
Log Message:
- Update to upstream 1.51
- Drop mx {Build}Requires, no longer used upstream
- Remove Martel modules, no longer distributed upstream
- Add flex to BuildRequires, patch setup to build
  Bio.PDB.mmCIF.MMCIFlex as per upstream:
  http://bugzilla.open-bio.org/show_bug.cgi?id=2619


python-biopython-1.51-enable-flex.patch:
 setup.py |   12 ++++++------
 1 file changed, 6 insertions(+), 6 deletions(-)

--- NEW FILE python-biopython-1.51-enable-flex.patch ---
--- setup.py.orig	2009-08-18 18:23:01.000000000 -0400
+++ setup.py	2009-08-18 18:23:22.000000000 -0400
@@ -304,12 +304,12 @@
               include_dirs=["Bio"]
               ),
 #Commented out due to the build dependency on flex, see Bug 2619
-#   Extension('Bio.PDB.mmCIF.MMCIFlex',
-#              ['Bio/PDB/mmCIF/lex.yy.c',
-#               'Bio/PDB/mmCIF/MMCIFlexmodule.c'],
-#              include_dirs=["Bio"],
-#              libraries=["fl"]
-#              ),
+   Extension('Bio.PDB.mmCIF.MMCIFlex',
+              ['Bio/PDB/mmCIF/lex.yy.c',
+               'Bio/PDB/mmCIF/MMCIFlexmodule.c'],
+              include_dirs=["Bio"],
+              libraries=["fl"]
+              ),
     Extension('Bio.Nexus.cnexus',
               ['Bio/Nexus/cnexus.c']
               ),


Index: .cvsignore
===================================================================
RCS file: /cvs/extras/rpms/python-biopython/F-11/.cvsignore,v
retrieving revision 1.7
retrieving revision 1.8
diff -u -p -r1.7 -r1.8
--- .cvsignore	1 Dec 2008 13:57:10 -0000	1.7
+++ .cvsignore	18 Aug 2009 22:45:19 -0000	1.8
@@ -1 +1 @@
-biopython-1.49.tar.gz
+biopython-1.51.tar.gz


Index: python-biopython.spec
===================================================================
RCS file: /cvs/extras/rpms/python-biopython/F-11/python-biopython.spec,v
retrieving revision 1.15
retrieving revision 1.16
diff -u -p -r1.15 -r1.16
--- python-biopython.spec	26 Feb 2009 20:50:53 -0000	1.15
+++ python-biopython.spec	18 Aug 2009 22:45:19 -0000	1.16
@@ -2,22 +2,22 @@
 %{!?python_sitearch: %define python_sitearch %(%{__python} -c "from distutils.sysconfig import get_python_lib; print get_python_lib(1)")}
 
 Name:             python-biopython
-Version:          1.49
-Release:          2%{?dist}
+Version:          1.51
+Release:          1%{?dist}
 Summary:          Python tools for computational molecular biology
 Source0:          http://biopython.org/DIST/biopython-%{version}.tar.gz
+Patch0:           python-biopython-1.51-enable-flex.patch
 License:          MIT
 Url:              http://www.biopython.org/
 Group:            Development/Libraries
 BuildRoot:        %{_tmppath}/%{name}-%{version}-%{release}-root-%(%{__id_u} -n)
 BuildRequires:    python-devel
+BuildRequires:    flex
 BuildRequires:    python-reportlab
-BuildRequires:    mx
 BuildRequires:    numpy
 BuildRequires:    MySQL-python
 BuildRequires:    python-psycopg2
 Requires:         python-reportlab
-Requires:         mx
 Requires:         numpy
 Requires:         MySQL-python
 Requires:         python-psycopg2
@@ -29,6 +29,8 @@ biology.
 
 %prep
 %setup -q -n biopython-%{version}
+# enable build of Bio.PDB.mmCIF.MMCIFlex (requires flex)
+%patch0 -p0
 
 # remove all execute bits from documentation and fix line endings
 find Scripts -type f -exec chmod -x {} 2>/dev/null ';'
@@ -63,12 +65,21 @@ rm -rf $RPM_BUILD_ROOT
 %endif
 %dir %{python_sitearch}/Bio
 %{python_sitearch}/Bio/*
-%dir %{python_sitearch}/Martel
-%{python_sitearch}/Martel/*
 %dir %{python_sitearch}/BioSQL
 %{python_sitearch}/BioSQL/*
 
 %changelog
+* Tue Aug 18 2009 Alex Lancaster <alexlan[AT]fedoraproject org> - 1.51-1
+- Update to upstream 1.51
+- Drop mx {Build}Requires, no longer used upstream
+- Remove Martel modules, no longer distributed upstream
+- Add flex to BuildRequires, patch setup to build
+  Bio.PDB.mmCIF.MMCIFlex as per upstream:
+  http://bugzilla.open-bio.org/show_bug.cgi?id=2619
+
+* Sun Jul 26 2009 Fedora Release Engineering <rel-eng at lists.fedoraproject.org> - 1.49-3
+- Rebuilt for https://fedoraproject.org/wiki/Fedora_12_Mass_Rebuild
+
 * Thu Feb 26 2009 Fedora Release Engineering <rel-eng at lists.fedoraproject.org> - 1.49-2
 - Rebuilt for https://fedoraproject.org/wiki/Fedora_11_Mass_Rebuild
 


Index: sources
===================================================================
RCS file: /cvs/extras/rpms/python-biopython/F-11/sources,v
retrieving revision 1.7
retrieving revision 1.8
diff -u -p -r1.7 -r1.8
--- sources	1 Dec 2008 13:57:10 -0000	1.7
+++ sources	18 Aug 2009 22:45:19 -0000	1.8
@@ -1 +1 @@
-d233d4944f0c17d5927ca32c5a30d5b3  biopython-1.49.tar.gz
+e973cb96b44b47526d31b6a0039c686f  biopython-1.51.tar.gz