[med-svn] r17061 - in trunk/packages/python-biopython/trunk/debian: . patches

[Andreas Tille]

Author: tille
Date: 2014-06-08 08:15:45 +0000 (Sun, 08 Jun 2014)
New Revision: 17061

Added:
   trunk/packages/python-biopython/trunk/debian/patches/fix_cpairwise2_import_issue.patch
Modified:
   trunk/packages/python-biopython/trunk/debian/changelog
   trunk/packages/python-biopython/trunk/debian/patches/series
Log:
Commit latest change: Apply upstream fix to fix cpairwise2 import issue under python3


Modified: trunk/packages/python-biopython/trunk/debian/changelog
===================================================================
--- trunk/packages/python-biopython/trunk/debian/changelog	2014-06-07 09:28:22 UTC (rev 17060)
+++ trunk/packages/python-biopython/trunk/debian/changelog	2014-06-08 08:15:45 UTC (rev 17061)
@@ -1,3 +1,10 @@
+python-biopython (1.63+dfsg-5) unstable; urgency=medium
+
+  * Apply upstream fix to fix cpairwise2 import issue under python3 
+    Closes: #747494
+
+ -- Andreas Tille <tille at debian.org>  Sat, 10 May 2014 07:52:48 +0200
+
 python-biopython (1.63+dfsg-4) unstable; urgency=medium
 
   [ Martin Pitt ]

Added: trunk/packages/python-biopython/trunk/debian/patches/fix_cpairwise2_import_issue.patch
===================================================================
--- trunk/packages/python-biopython/trunk/debian/patches/fix_cpairwise2_import_issue.patch	                        (rev 0)
+++ trunk/packages/python-biopython/trunk/debian/patches/fix_cpairwise2_import_issue.patch	2014-06-08 08:15:45 UTC (rev 17061)
@@ -0,0 +1,18 @@
+Author: Peter Cock <p.j.a.cock at googlemail.com>
+Last-Update: Fri, 9 May 2014 13:36:32 +0100
+Bugs-Debian: http://bugs.debian.org/747494
+Bugs-Upstream: https://github.com/biopython/biopython/pull/299
+Description: fix cpairwise2 import issue under python3
+ see https://github.com/biopython/biopython/commit/daf3e3b5ba317fbbea1f7eebae3c5f8b06a40d6b
+
+--- a/Bio/pairwise2.py
++++ b/Bio/pairwise2.py
+@@ -878,7 +878,7 @@ def format_alignment(align1, align2, sco
+ # Try and load C implementations of functions.  If I can't,
+ # then just ignore and use the pure python implementations.
+ try:
+-    from cpairwise2 import rint, _make_score_matrix_fast
++    from .cpairwise2 import rint, _make_score_matrix_fast
+ except ImportError:
+     pass
+ 

Modified: trunk/packages/python-biopython/trunk/debian/patches/series
===================================================================
--- trunk/packages/python-biopython/trunk/debian/patches/series	2014-06-07 09:28:22 UTC (rev 17060)
+++ trunk/packages/python-biopython/trunk/debian/patches/series	2014-06-08 08:15:45 UTC (rev 17061)
@@ -3,3 +3,4 @@
 use_upstream_patch_for_bwa_test.patch
 biopython-from-pil-import-image.patch
 remove_mathml-qname.patch
+fix_cpairwise2_import_issue.patch