[med-svn] r4931 - in trunk/packages/python-cogent/trunk: . debian debian/patches source
Steffen Möller
moeller at alioth.debian.org
Fri Jun 25 16:33:12 UTC 2010
Author: moeller
Date: 2010-06-25 16:33:10 +0000 (Fri, 25 Jun 2010)
New Revision: 4931
Added:
trunk/packages/python-cogent/trunk/debian/patches/
trunk/packages/python-cogent/trunk/debian/patches/fix_python_shebang_line.patch
trunk/packages/python-cogent/trunk/debian/patches/series
trunk/packages/python-cogent/trunk/source/
trunk/packages/python-cogent/trunk/source/format
Removed:
trunk/packages/python-cogent/trunk/debian/README.Debian
Modified:
trunk/packages/python-cogent/trunk/debian/README.source
trunk/packages/python-cogent/trunk/debian/changelog
trunk/packages/python-cogent/trunk/debian/control
Log:
Series of updates towards lintian-cleanliness
Deleted: trunk/packages/python-cogent/trunk/debian/README.Debian
===================================================================
--- trunk/packages/python-cogent/trunk/debian/README.Debian 2010-06-25 16:19:19 UTC (rev 4930)
+++ trunk/packages/python-cogent/trunk/debian/README.Debian 2010-06-25 16:33:10 UTC (rev 4931)
@@ -1,6 +0,0 @@
-python-pycogent for Debian
---------------------------
-
-<possible notes regarding this package - if none, delete this file>
-
- -- root <root at unknown> Fri, 25 Jun 2010 17:23:58 +0200
Modified: trunk/packages/python-cogent/trunk/debian/README.source
===================================================================
--- trunk/packages/python-cogent/trunk/debian/README.source 2010-06-25 16:19:19 UTC (rev 4930)
+++ trunk/packages/python-cogent/trunk/debian/README.source 2010-06-25 16:33:10 UTC (rev 4931)
@@ -1,9 +1,8 @@
-python-pycogent for Debian
+python-cogent for Debian
--------------------------
-<this file describes information about the source package, see Debian policy
-manual section 4.14. You WILL either need to modify or delete this file>
+All source is left intact, except for obvious adjustments to the shebang
+line to have it point to /usr/bin/python.
-
Modified: trunk/packages/python-cogent/trunk/debian/changelog
===================================================================
--- trunk/packages/python-cogent/trunk/debian/changelog 2010-06-25 16:19:19 UTC (rev 4930)
+++ trunk/packages/python-cogent/trunk/debian/changelog 2010-06-25 16:33:10 UTC (rev 4931)
@@ -1,6 +1,6 @@
python-cogent (1.4.1-1) unstable; urgency=low
- * Initial release (Closes: #nnnn)
+ * Initial release (Closes: #587161)
-- Sri Girish Srinivasa Murthy <srigirish at evolbio.mpg.de> Fri, 25 Jun 2010 17:23:58 +0200
Modified: trunk/packages/python-cogent/trunk/debian/control
===================================================================
--- trunk/packages/python-cogent/trunk/debian/control 2010-06-25 16:19:19 UTC (rev 4930)
+++ trunk/packages/python-cogent/trunk/debian/control 2010-06-25 16:33:10 UTC (rev 4931)
@@ -1,5 +1,5 @@
Source: python-cogent
-Section: science
+Section: python
Priority: extra
Maintainer: Sri Girish Srinivasa Murthy <srigirish at evolbio.mpg.de>
Build-Depends: debhelper (>= 7), cdbs, python, python-central, python-numpy (>= 1.3.0)
Added: trunk/packages/python-cogent/trunk/debian/patches/fix_python_shebang_line.patch
===================================================================
--- trunk/packages/python-cogent/trunk/debian/patches/fix_python_shebang_line.patch (rev 0)
+++ trunk/packages/python-cogent/trunk/debian/patches/fix_python_shebang_line.patch 2010-06-25 16:33:10 UTC (rev 4931)
@@ -0,0 +1,67 @@
+Index: python-cogent-1.4.1/cogent/align/dp_calculation.py
+===================================================================
+--- python-cogent-1.4.1.orig/cogent/align/dp_calculation.py 2010-06-25 18:29:53.790029187 +0200
++++ python-cogent-1.4.1/cogent/align/dp_calculation.py 2010-06-25 18:29:58.700028486 +0200
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env/python
++#!/usr/bin/python
+
+ from cogent.maths.markov import SiteClassTransitionMatrix
+ from cogent.recalculation.definition import PositiveParamDefn, \
+Index: python-cogent-1.4.1/cogent/data/molecular_weight.py
+===================================================================
+--- python-cogent-1.4.1.orig/cogent/data/molecular_weight.py 2010-06-25 18:29:27.460027576 +0200
++++ python-cogent-1.4.1/cogent/data/molecular_weight.py 2010-06-25 18:29:33.790026526 +0200
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env Python
++#!/usr/bin/python
+ """Data for molecular weight calculations on proteins and nucleotides."""
+
+ __author__ = "Rob Knight"
+Index: python-cogent-1.4.1/cogent/format/text_tree.py
+===================================================================
+--- python-cogent-1.4.1.orig/cogent/format/text_tree.py 2010-06-25 18:26:20.110027538 +0200
++++ python-cogent-1.4.1/cogent/format/text_tree.py 2010-06-25 18:26:30.180027920 +0200
+@@ -1,4 +1,4 @@
+-#!/bin/env python
++#!/usr/bin/python
+ # file text_tree.py
+ """Simple base text representation of phylo tree."""
+
+Index: python-cogent-1.4.1/cogent/phylo/maximum_likelihood.py
+===================================================================
+--- python-cogent-1.4.1.orig/cogent/phylo/maximum_likelihood.py 2010-06-25 18:27:03.970027345 +0200
++++ python-cogent-1.4.1/cogent/phylo/maximum_likelihood.py 2010-06-25 18:27:48.590027730 +0200
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env python'
++#!/usr/bin/python
+ from tree_space import TreeEvaluator, ancestry2tree
+ from least_squares import WLS
+ from math import exp
+@@ -68,4 +68,4 @@
+ return LogLikelihoodScoredTreeCollection(results)
+
+
+-
+\ No newline at end of file
++
+Index: python-cogent-1.4.1/cogent/recalculation/__init__.py
+===================================================================
+--- python-cogent-1.4.1.orig/cogent/recalculation/__init__.py 2010-06-25 18:28:36.420027396 +0200
++++ python-cogent-1.4.1/cogent/recalculation/__init__.py 2010-06-25 18:28:42.280028115 +0200
+@@ -1,4 +1,4 @@
+-#!/usr/bin/envthon
++#!/usr/bin/python
+ __all__ = ['array', 'calculation', 'definition', 'scope', 'setting']
+
+ __author__ = "Peter Maxwell"
+Index: python-cogent-1.4.1/cogent/recalculation/setting.py
+===================================================================
+--- python-cogent-1.4.1.orig/cogent/recalculation/setting.py 2010-06-25 18:27:33.160026774 +0200
++++ python-cogent-1.4.1/cogent/recalculation/setting.py 2010-06-25 18:27:42.830027966 +0200
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env python'
++#!/usr/bin/python
+ """Instances of these classes are assigned to different parameter/scopes
+ by a parameter controller"""
+
Added: trunk/packages/python-cogent/trunk/debian/patches/series
===================================================================
--- trunk/packages/python-cogent/trunk/debian/patches/series (rev 0)
+++ trunk/packages/python-cogent/trunk/debian/patches/series 2010-06-25 16:33:10 UTC (rev 4931)
@@ -0,0 +1 @@
+fix_python_shebang_line.patch
Added: trunk/packages/python-cogent/trunk/source/format
===================================================================
--- trunk/packages/python-cogent/trunk/source/format (rev 0)
+++ trunk/packages/python-cogent/trunk/source/format 2010-06-25 16:33:10 UTC (rev 4931)
@@ -0,0 +1 @@
+3.0 (quilt)
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