[med-svn] r6502 - trunk/packages/gbrowse/trunk/debian/patches
Author: plessy
Date: 2011-04-10 09:13:35 + (Sun, 10 Apr 2011)
New Revision: 6502
Modified:
trunk/packages/gbrowse/trunk/debian/patches/debian-packaging-patch
Log:
Patch refreshed with ?\226?\128?\156quilt refresh?\226?\128?\157.
This changes nothing, but will make the next commit more readable.
Modified: trunk/packages/gbrowse/trunk/debian/patches/debian-packaging-patch
===
--- trunk/packages/gbrowse/trunk/debian/patches/debian-packaging-patch
2011-04-09 18:56:56 UTC (rev 6501)
+++ trunk/packages/gbrowse/trunk/debian/patches/debian-packaging-patch
2011-04-10 09:13:35 UTC (rev 6502)
@@ -1,6 +1,8 @@
Patch to fit debian packaging - Olivier Sallou - February 2011
a/install_util/GBrowseInstall.pm
-+++ b/install_util/GBrowseInstall.pm
+Index: gbrowse-2.26~dfsg.orig/install_util/GBrowseInstall.pm
+===
+--- gbrowse-2.26~dfsg.orig.orig/install_util/GBrowseInstall.pm 2011-04-10
18:12:23.0 +0900
gbrowse-2.26~dfsg.orig/install_util/GBrowseInstall.pm 2011-04-10
18:12:26.0 +0900
@@ -403,6 +403,85 @@
END
}
@@ -87,8 +89,10 @@
sub ACTION_install {
my $self = shift;
my $prefix = $self-install_base || $self-prefix || '';
a/etc/init.d/gbrowse-slave
-+++ b/etc/init.d/gbrowse-slave
+Index: gbrowse-2.26~dfsg.orig/etc/init.d/gbrowse-slave
+===
+--- gbrowse-2.26~dfsg.orig.orig/etc/init.d/gbrowse-slave 2011-04-10
18:12:23.0 +0900
gbrowse-2.26~dfsg.orig/etc/init.d/gbrowse-slave2011-04-10
18:12:26.0 +0900
@@ -1,10 +1,10 @@
#!/bin/sh
### BEGIN INIT INFO
@@ -104,23 +108,27 @@
# Short-Description: Start/Stop the gbrowse_slave rendering server.
### END INIT INFO
a/etc/default/gbrowse-slave
-+++ b/etc/default/gbrowse-slave
+Index: gbrowse-2.26~dfsg.orig/etc/default/gbrowse-slave
+===
+--- gbrowse-2.26~dfsg.orig.orig/etc/default/gbrowse-slave 2011-04-10
18:12:23.0 +0900
gbrowse-2.26~dfsg.orig/etc/default/gbrowse-slave 2011-04-10
18:12:26.0 +0900
@@ -2,9 +2,9 @@
export PERL5LIB=$PERL5LIB
+-DAEMON=$INSTALLSCRIPT/gbrowse_slave
+-USER=$WWWUSER
+-PRELOAD=$CONF/slave_preload.conf
+DAEMON=/usr/bin/gbrowse_slave
+USER=www-data
+PRELOAD=/etc/gbrowse/slave_preload.conf
--DAEMON=$INSTALLSCRIPT/gbrowse_slave
--USER=$WWWUSER
--PRELOAD=$CONF/slave_preload.conf
RUNDIR=/var/run/gbrowse
LOGDIR=/var/log/gbrowse
PORT=8101 8102 8103
a/bin/gbrowse_metadb_config.pl
-+++ b/bin/gbrowse_metadb_config.pl
+Index: gbrowse-2.26~dfsg.orig/bin/gbrowse_metadb_config.pl
+===
+--- gbrowse-2.26~dfsg.orig.orig/bin/gbrowse_metadb_config.pl 2011-04-10
18:12:23.0 +0900
gbrowse-2.26~dfsg.orig/bin/gbrowse_metadb_config.pl2011-04-10
18:12:26.0 +0900
@@ -21,7 +21,10 @@
my @argv = @ARGV;
@@ -145,8 +153,10 @@
fix_sqlite_permissions() if $type =~ /sqlite/i;
$database-disconnect;
a/htdocs/index.html
-+++ b/htdocs/index.html
+Index: gbrowse-2.26~dfsg.orig/htdocs/index.html
+===
+--- gbrowse-2.26~dfsg.orig.orig/htdocs/index.html 2011-04-10
18:12:23.0 +0900
gbrowse-2.26~dfsg.orig/htdocs/index.html 2011-04-10 18:12:26.0
+0900
@@ -24,7 +24,7 @@
dda href=example_scripts$HTDOCS/example_scripts/a/dd
/dl
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[med-svn] r6504 - trunk/packages/gbrowse/trunk/debian
Author: plessy Date: 2011-04-10 09:46:04 + (Sun, 10 Apr 2011) New Revision: 6504 Modified: trunk/packages/gbrowse/trunk/debian/rules Log: Removed another override that became unnecessary. Modified: trunk/packages/gbrowse/trunk/debian/rules === --- trunk/packages/gbrowse/trunk/debian/rules 2011-04-10 09:39:49 UTC (rev 6503) +++ trunk/packages/gbrowse/trunk/debian/rules 2011-04-10 09:46:04 UTC (rev 6504) @@ -46,10 +46,6 @@ rm -rf debian/gbrowse/man rm -rf debian/gbrowse-calign/man - -override_dh_auto_build-gbrowse-data: - #Skip - override_dh_builddeb: dh_builddeb -- -Zbzip2 ___ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
[med-svn] r6506 - trunk/packages/gbrowse/trunk/debian
Author: plessy Date: 2011-04-10 11:13:14 + (Sun, 10 Apr 2011) New Revision: 6506 Modified: trunk/packages/gbrowse/trunk/debian/gbrowse.links Log: Link to the JavaScript libraries provided through Debian. Modified: trunk/packages/gbrowse/trunk/debian/gbrowse.links === --- trunk/packages/gbrowse/trunk/debian/gbrowse.links 2011-04-10 11:04:59 UTC (rev 6505) +++ trunk/packages/gbrowse/trunk/debian/gbrowse.links 2011-04-10 11:13:14 UTC (rev 6506) @@ -1 +1,3 @@ etc/gbrowse/apache2.conf etc/apache2/conf.d/gbrowse +usr/share/javascript/prototype/prototype.js usr/share/gbrowse/htdocs/js/prototype.js +usr/share/javascript/scriptaculous/scriptaculous.js usr/share/gbrowse/htdocs/js/scriptaculous.js ___ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
[med-svn] r6507 - trunk/packages/gbrowse/trunk/debian
Author: plessy Date: 2011-04-10 11:17:25 + (Sun, 10 Apr 2011) New Revision: 6507 Modified: trunk/packages/gbrowse/trunk/debian/gbrowse.dirs trunk/packages/gbrowse/trunk/debian/postinst Log: Disabling call to /usr/bin/gbrowse_metadb_config. Since it was creating var/cache/gbrowse/sessions, debian/gbrowse.dirs is modified accordingly to create it at build time. More in general, /usr/bin/gbrowse_metadb_config is creating and removing directories in /usr and /var. I do not think that this should be done in a maintainer script. Since it is not essential for runnign the demos, I disabled it for the moment. Modified: trunk/packages/gbrowse/trunk/debian/gbrowse.dirs === --- trunk/packages/gbrowse/trunk/debian/gbrowse.dirs2011-04-10 11:13:14 UTC (rev 6506) +++ trunk/packages/gbrowse/trunk/debian/gbrowse.dirs2011-04-10 11:17:25 UTC (rev 6507) @@ -1,2 +1,3 @@ etc/gbrowse usr/share/perl5 +var/cache/gbrowse/sessions Modified: trunk/packages/gbrowse/trunk/debian/postinst === --- trunk/packages/gbrowse/trunk/debian/postinst2011-04-10 11:13:14 UTC (rev 6506) +++ trunk/packages/gbrowse/trunk/debian/postinst2011-04-10 11:17:25 UTC (rev 6507) @@ -13,7 +13,7 @@ chown -R root:www-data /var/cache/gbrowse chmod -R 770 /var/cache/gbrowse # Initialize account database -perl /usr/bin/gbrowse_metadb_config +# perl /usr/bin/gbrowse_metadb_config chown -R www-data:www-data /var/cache/gbrowse/sessions chown www-data:www-data /usr/share/gbrowse/databases/users.sqlite ___ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
[med-svn] r6508 - trunk/packages/figtree/trunk/debian
Author: tille
Date: 2011-04-10 17:04:12 + (Sun, 10 Apr 2011)
New Revision: 6508
Modified:
trunk/packages/figtree/trunk/debian/copyright
Log:
Fixed license
Modified: trunk/packages/figtree/trunk/debian/copyright
===
--- trunk/packages/figtree/trunk/debian/copyright 2011-04-10 11:17:25 UTC
(rev 6507)
+++ trunk/packages/figtree/trunk/debian/copyright 2011-04-10 17:04:12 UTC
(rev 6508)
@@ -24,11 +24,46 @@
Boston, MA 02110-1301 USA
.
On Debian systems, the full text of the GNU General Public
- License version 2 can be found in the file
+ License can be found in the file
`/usr/share/common-licenses/GPL'.
+Files: src/figtree/application/Arguments.java
+ src/figtree/application/Utils.java
+ src/figtree/ui/components/ColorWellButton.java
+ src/figtree/ui/components/JVerticalLabel.java
+ src/figtree/ui/components/RealNumberField.java
+ src/figtree/ui/components/WholeNumberField.java
+Copyright: © 2009 JAM Development Team
+License: LGPL
+Files: src/figtree/panel/SimpleTreeViewer.java
+ src/figtree/treeviewer/annotations/AnnotationDefinitionsDialog.java
+ src/figtree/treeviewer/annotations/AnnotationDialog.java
+ src/figtree/treeviewer/annotations/DefineAnnotationDialog.java
+ src/figtree/treeviewer/annotations/SelectAnnotationDialog.java
+ src/figtree/treeviewer/DefaultTreeViewer.java
+ src/figtree/treeviewer/ExtendedTreeViewer.java
+Copyright: © 2002-2005 BEAST Development Core Team
+License: LGPL
+ This library is free software; you can redistribute it and/or
+ modify it under the terms of the GNU Lesser General Public
+ License as published by the Free Software Foundation; either
+ version 3 of the License, or (at your option) any later version.
+ .
+ This library is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
+ Lesser General Public License for more details.
+ .
+ You should have received a copy of the GNU Lesser General Public
+ License along with this library ('COPYING'); if not, write to the Free
Software
+ Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA
+ .
+ On Debian systems, the full text of the GNU LESSER GENERAL
+ PUBLIC LICENSE can be found in the file
+ `/usr/share/common-licenses/GPL'.
+
Files: debian/*
Copyright: © 2011 Andreas Tille ti...@debian.org
-License: PD
- The packaging work is in the public domain unless stated otherwise.
+License: LGPL
+ The packaging is licensed under LGPL
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[med-svn] r6509 - in trunk/packages/mgltools/pyglf: . tags
Author: tille Date: 2011-04-10 17:10:54 + (Sun, 10 Apr 2011) New Revision: 6509 Added: trunk/packages/mgltools/pyglf/tags/1.5.4.cvs.20100912-1/ Removed: trunk/packages/mgltools/pyglf/branches/ Log: Tagged existing 1.5.4.cvs.20100912-1 ___ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
[med-svn] r6510 - trunk/packages/python-biopython/trunk/debian
Author: philipp Date: 2011-04-10 17:58:03 + (Sun, 10 Apr 2011) New Revision: 6510 Modified: trunk/packages/python-biopython/trunk/debian/changelog trunk/packages/python-biopython/trunk/debian/control Log: release 1.56-1 Modified: trunk/packages/python-biopython/trunk/debian/changelog === --- trunk/packages/python-biopython/trunk/debian/changelog 2011-04-10 17:10:54 UTC (rev 6509) +++ trunk/packages/python-biopython/trunk/debian/changelog 2011-04-10 17:58:03 UTC (rev 6510) @@ -1,6 +1,12 @@ +python-biopython (1.56-1) unstable; urgency=low + + * New upstream release. + + -- Philipp Benner phil...@debian.org Thu, 02 Dec 2010 17:30:09 + + python-biopython (1.54-1) unstable; urgency=low - * New upstream release + * New upstream release. -- Philipp Benner phil...@debian.org Fri, 28 May 2010 00:06:43 +0200 Modified: trunk/packages/python-biopython/trunk/debian/control === --- trunk/packages/python-biopython/trunk/debian/control2011-04-10 17:10:54 UTC (rev 6509) +++ trunk/packages/python-biopython/trunk/debian/control2011-04-10 17:58:03 UTC (rev 6510) @@ -9,7 +9,7 @@ # For the purpose of the tests python-mysqldb, wise XS-Python-Version: = 2.3 -Standards-Version: 3.8.4 +Standards-Version: 3.9.1 Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/python-biopython/trunk/?rev=0sc=0 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/python-biopython/trunk/ Homepage: http://biopython.org ___ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
[med-svn] r6511 - in trunk/packages/python-biopython/tags: . 1.56-1/debian
Author: philipp
Date: 2011-04-10 17:58:26 + (Sun, 10 Apr 2011)
New Revision: 6511
Added:
trunk/packages/python-biopython/tags/1.56-1/
trunk/packages/python-biopython/tags/1.56-1/debian/changelog
trunk/packages/python-biopython/tags/1.56-1/debian/control
Removed:
trunk/packages/python-biopython/tags/1.56-1/debian/changelog
trunk/packages/python-biopython/tags/1.56-1/debian/control
Log:
[svn-buildpackage] Tagging python-biopython 1.56-1
Deleted: trunk/packages/python-biopython/tags/1.56-1/debian/changelog
===
--- trunk/packages/python-biopython/trunk/debian/changelog 2011-04-10
17:10:54 UTC (rev 6509)
+++ trunk/packages/python-biopython/tags/1.56-1/debian/changelog
2011-04-10 17:58:26 UTC (rev 6511)
@@ -1,223 +0,0 @@
-python-biopython (1.54-1) unstable; urgency=low
-
- * New upstream release
-
- -- Philipp Benner phil...@debian.org Fri, 28 May 2010 00:06:43 +0200
-
-python-biopython (1.53-1) unstable; urgency=low
-
- * New upstream release.
-
- -- Philipp Benner phil...@debian.org Mon, 21 Dec 2009 15:30:37 +
-
-python-biopython (1.52-1) unstable; urgency=low
-
- * New upstream release.
-
- -- Philipp Benner phil...@debian.org Wed, 30 Sep 2009 10:16:03 +
-
-python-biopython (1.51final-2) unstable; urgency=low
-
- * Merged patch from ubuntu to make the package ready for
-python2.6 (Closes: #543236).
-
- -- Philipp Benner phil...@debian.org Mon, 24 Aug 2009 09:29:27 +
-
-python-biopython (1.51final-1) unstable; urgency=low
-
- * New upstream release
- * debian/control: suggesting muscle, clustalw, mafft, emboss, and
-blast2 for installation
-
- -- Philipp Benner phil...@debian.org Wed, 19 Aug 2009 10:41:19 +
-
-python-biopython (1.51b-2) unstable; urgency=low
-
- * Dropped python-biopython-martel.
- * Dropped dependency on python-egenix-mxtexttools.
- * Removed DM-Upload-Allowed: yes.
-
- -- Philipp Benner phil...@debian.org Tue, 11 Aug 2009 19:47:52 +
-
-python-biopython (1.51b-1) unstable; urgency=low
-
- * New upstream release
- * debian/control:
-- moved python-martel back to section python (python packages do not
-use section oldlibs)
- * debian/patches/02-fix-wise-test.patch
-- removed (merged with upstream)
- * debian/control:
-- Changed the description of python-biopython-sql according to Peter Cock's
- suggestions.
-[Charles Plessy]
-
- -- Philipp Benner pben...@uni-osnabrueck.de Sat, 27 Jun 2009 15:14:52 +
-
-python-biopython (1.49-1) unstable; urgency=low
-
- * New upstream release.
-- uses NumPy rather than its precursor Numeric (Closes: #478457)
-- Martel, Bio.Mindy, Bio.MetaTool, Bio.EUtils, Bio.Saf, Bio.NBRF, and
- Bio.IntelliGenetics are deprecated.
-- Bio.PubMed and the online code in Bio.GenBank are now considered obsolete
- and will be deprecated in a future release.
-- Bio.Fasta is also considered to be obsolete and will eventually be
- deprecated.
- * debian/control:
-- added myself as Uploader.
-- depends on python-numpy instead of python-numeric-ext.
-- moved python-martel to oldlibs section, priority extra as it is
- deprecated, and indicate this in the description.
-- build-depend on python-mysqldb and wise for the tests after building.
- * Use Debhelper 7 (debian/co{ntrol,mpat}).
- * debian/copyright: added myself to the Hall of Fame and updated to latest
-draft of the machine-readable format.
- * debian/watch: makes beta versions lower by prepending a tilde between
-numbers and letters (1.49b - 1.49~b).
- * mmCIF support enabled:
-- debian/patches/01-enable-mmCIF.patch: as the name indicates ;)
-- debian/rules: patch and unpatch through /usr/share/quilt/quilt.make.
-- debian/control: build-depends on quilt.
- * debian/python-biopython-doc.doc-base: corrected index name that was changed
-upstream.
- * debian/patches/02-fix-wise-test.patch: prevents tests failing with Debian's
-version of Wise.
- * debian/rules: perform tests after build.
-
- -- Charles Plessy ple...@debian.org Fri, 23 Jan 2009 22:19:50 +0900
-
-python-biopython (1.47-1) unstable; urgency=low
-
- * New upstream release
- * Standards version 3.8.0
-
- -- Philipp Benner pben...@uni-osnabrueck.de Sun, 03 Aug 2008 14:29:33 +0200
-
-python-biopython (1.45-3) unstable; urgency=low
-
- * Removed dependency on python-numeric-ext since it is already in
-the recommends field
-
- -- Philipp Benner pben...@uni-osnabrueck.de Sun, 01 Jun 2008 10:34:48 +0200
-
-python-biopython (1.45-2) unstable; urgency=low
-
- * Add dependency on python-numeric-ext (Bio.PDB uses MLab from this package)
-
- -- Morten Kjeldgaard m...@bioxray.au.dk Wed, 23 Apr 2008 00:01:16 +0200
-
-python-biopython (1.45-1) unstable; urgency=low
-
- * New upstream release.
- * Added doc-base.
-
- -- Philipp Benner pben...@uni-osnabrueck.de Sat, 29 Mar 2008 12:20:41 +0100
-
-python-biopython
[med-svn] r6512 - in trunk/packages/mgltools/pyglf/trunk/debian: . source
Author: tille Date: 2011-04-10 18:17:10 + (Sun, 10 Apr 2011) New Revision: 6512 Added: trunk/packages/mgltools/pyglf/trunk/debian/source/ trunk/packages/mgltools/pyglf/trunk/debian/source/format Removed: trunk/packages/mgltools/pyglf/trunk/debian/pycompat Modified: trunk/packages/mgltools/pyglf/trunk/debian/changelog trunk/packages/mgltools/pyglf/trunk/debian/control trunk/packages/mgltools/pyglf/trunk/debian/rules Log: Build-Depends freeglut2 instead of glut; use dh_python2 instead of py-compat; some packaging updates Modified: trunk/packages/mgltools/pyglf/trunk/debian/changelog === --- trunk/packages/mgltools/pyglf/trunk/debian/changelog2011-04-10 17:58:26 UTC (rev 6511) +++ trunk/packages/mgltools/pyglf/trunk/debian/changelog2011-04-10 18:17:10 UTC (rev 6512) @@ -1,18 +1,32 @@ +mgltools-pyglf (1.5.4.cvs.20100912-2) unstable; urgency=low + + * debian/control +- Standards-Version: 3.9.2 (no changes needed) +- Build-Depend: freeglut3-dev (instead of libglut3-dev) + Closes: 543696 +- Build-Depends: python-all-dev (= 2.6) (and dropped + python-central) +- Dropped Build-Depends cdbs + * Debhelper 8.0 (control+contrib) + * debian/source/format: 3.0 (quilt) + * debian/rules: switch to short dh syntax which makes +dh_python2 easy + + -- Andreas Tille ti...@debian.org Sun, 10 Apr 2011 19:11:57 +0200 + mgltools-pyglf (1.5.4.cvs.20100912-1) unstable; urgency=low + [Steffen Moeller] * New upstream version. * Adjusted dependencies (Closes: #596321, #586846). - -- Steffen Moeller moel...@debian.org Sun, 12 Sep 2010 00:20:31 +0200 - -mgltools-pyglf (1.5.4.cvs.20090603-2) UNRELEASED; urgency=low - + [Andreas Tille] * debian/control: - Enhances: autodocktools - debhelper 7 - Standards-Version: 3.8.3 (no changes needed) - -- Andreas Tille ti...@debian.org Fri, 16 Oct 2009 22:50:53 +0200 + -- Steffen Moeller moel...@debian.org Sun, 12 Sep 2010 00:20:31 +0200 mgltools-pyglf (1.5.4.cvs.20090603-1.1) unstable; urgency=low Modified: trunk/packages/mgltools/pyglf/trunk/debian/control === --- trunk/packages/mgltools/pyglf/trunk/debian/control 2011-04-10 17:58:26 UTC (rev 6511) +++ trunk/packages/mgltools/pyglf/trunk/debian/control 2011-04-10 18:17:10 UTC (rev 6512) @@ -6,8 +6,9 @@ XS-Autobuild: yes Uploaders: Steffen Moeller moel...@debian.org, Sargis Dallakyan sar...@scripps.edu, Andreas Tille ti...@debian.org -Build-Depends: debhelper (= 7), python-central (= 0.5.6), cdbs (= 0.4), python-all-dev, libxi-dev, swig, libglu1-mesa-dev, libxmu-dev, mesa-common-dev, libglut3-dev, python-numpy -Standards-Version: 3.9.1.0 +Build-Depends: debhelper (= 8), python-all-dev (= 2.6), libxi-dev, swig, + libglu1-mesa-dev, libxmu-dev, mesa-common-dev, freeglut3-dev, python-numpy +Standards-Version: 3.9.2 XS-Python-Version: = 2.5 Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/mgltools/pyglf/trunk/?rev=0sc=0 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/mgltools/pyglf/trunk/ Deleted: trunk/packages/mgltools/pyglf/trunk/debian/pycompat === --- trunk/packages/mgltools/pyglf/trunk/debian/pycompat 2011-04-10 17:58:26 UTC (rev 6511) +++ trunk/packages/mgltools/pyglf/trunk/debian/pycompat 2011-04-10 18:17:10 UTC (rev 6512) @@ -1 +0,0 @@ -2 Modified: trunk/packages/mgltools/pyglf/trunk/debian/rules === --- trunk/packages/mgltools/pyglf/trunk/debian/rules2011-04-10 17:58:26 UTC (rev 6511) +++ trunk/packages/mgltools/pyglf/trunk/debian/rules2011-04-10 18:17:10 UTC (rev 6512) @@ -1,20 +1,14 @@ #!/usr/bin/make -f # -*- makefile -*- -# Sample debian/rules that uses debhelper. -# This file was originally written by Joey Hess and Craig Small. -# As a special exception, when this file is copied by dh-make into a -# dh-make output file, you may use that output file without restriction. -# This special exception was added by Craig Small in version 0.37 of dh-make. +# debian/rules for mgltools-pyglf # Uncomment this to turn on verbose mode. #export DH_VERBOSE=1 -export DEB_PYTHON_SYSTEM=pycentral +%: + dh $@ --with python2 -include /usr/share/cdbs/1/rules/debhelper.mk -include /usr/share/cdbs/1/class/python-distutils.mk -#include /usr/share/cdbs/1/rules/simple-patchsys.mk - -clean:: +override_dh_clean: + dh_clean find . -name CVS -a -type d| xargs -r rm -r rm -rf build build-stamp debian/Pmv Added: trunk/packages/mgltools/pyglf/trunk/debian/source/format === --- trunk/packages/mgltools/pyglf/trunk/debian/source/format (rev 0) +++ trunk/packages/mgltools/pyglf/trunk/debian/source/format2011-04-10
[med-svn] r6513 - trunk/packages/mgltools/pyglf/tags
Author: tille Date: 2011-04-10 18:18:41 + (Sun, 10 Apr 2011) New Revision: 6513 Added: trunk/packages/mgltools/pyglf/tags/1.5.4.cvs.20100912-2/ Log: Tagged 1.5.4.cvs.20100912-2 ___ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
[med-svn] r6514 - trunk/packages/python-biopython/trunk/debian
Author: philipp Date: 2011-04-10 18:38:16 + (Sun, 10 Apr 2011) New Revision: 6514 Modified: trunk/packages/python-biopython/trunk/debian/changelog Log: release 1.57-1 Modified: trunk/packages/python-biopython/trunk/debian/changelog === --- trunk/packages/python-biopython/trunk/debian/changelog 2011-04-10 18:18:41 UTC (rev 6513) +++ trunk/packages/python-biopython/trunk/debian/changelog 2011-04-10 18:38:16 UTC (rev 6514) @@ -1,3 +1,9 @@ +python-biopython (1.57-1) unstable; urgency=low + + * New upstream release (Closes: #585282). + + -- Philipp Benner phil...@debian.org Sun, 10 Apr 2011 17:58:01 + + python-biopython (1.56-1) unstable; urgency=low * New upstream release. ___ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
[med-svn] r6515 - in trunk/packages/python-biopython/tags: . 1.57-1/debian
Author: philipp
Date: 2011-04-10 18:38:32 + (Sun, 10 Apr 2011)
New Revision: 6515
Added:
trunk/packages/python-biopython/tags/1.57-1/
trunk/packages/python-biopython/tags/1.57-1/debian/changelog
trunk/packages/python-biopython/tags/1.57-1/debian/control
Removed:
trunk/packages/python-biopython/tags/1.57-1/debian/changelog
trunk/packages/python-biopython/tags/1.57-1/debian/control
Log:
[svn-buildpackage] Tagging python-biopython 1.57-1
Deleted: trunk/packages/python-biopython/tags/1.57-1/debian/changelog
===
--- trunk/packages/python-biopython/trunk/debian/changelog 2011-04-10
17:10:54 UTC (rev 6509)
+++ trunk/packages/python-biopython/tags/1.57-1/debian/changelog
2011-04-10 18:38:32 UTC (rev 6515)
@@ -1,223 +0,0 @@
-python-biopython (1.54-1) unstable; urgency=low
-
- * New upstream release
-
- -- Philipp Benner phil...@debian.org Fri, 28 May 2010 00:06:43 +0200
-
-python-biopython (1.53-1) unstable; urgency=low
-
- * New upstream release.
-
- -- Philipp Benner phil...@debian.org Mon, 21 Dec 2009 15:30:37 +
-
-python-biopython (1.52-1) unstable; urgency=low
-
- * New upstream release.
-
- -- Philipp Benner phil...@debian.org Wed, 30 Sep 2009 10:16:03 +
-
-python-biopython (1.51final-2) unstable; urgency=low
-
- * Merged patch from ubuntu to make the package ready for
-python2.6 (Closes: #543236).
-
- -- Philipp Benner phil...@debian.org Mon, 24 Aug 2009 09:29:27 +
-
-python-biopython (1.51final-1) unstable; urgency=low
-
- * New upstream release
- * debian/control: suggesting muscle, clustalw, mafft, emboss, and
-blast2 for installation
-
- -- Philipp Benner phil...@debian.org Wed, 19 Aug 2009 10:41:19 +
-
-python-biopython (1.51b-2) unstable; urgency=low
-
- * Dropped python-biopython-martel.
- * Dropped dependency on python-egenix-mxtexttools.
- * Removed DM-Upload-Allowed: yes.
-
- -- Philipp Benner phil...@debian.org Tue, 11 Aug 2009 19:47:52 +
-
-python-biopython (1.51b-1) unstable; urgency=low
-
- * New upstream release
- * debian/control:
-- moved python-martel back to section python (python packages do not
-use section oldlibs)
- * debian/patches/02-fix-wise-test.patch
-- removed (merged with upstream)
- * debian/control:
-- Changed the description of python-biopython-sql according to Peter Cock's
- suggestions.
-[Charles Plessy]
-
- -- Philipp Benner pben...@uni-osnabrueck.de Sat, 27 Jun 2009 15:14:52 +
-
-python-biopython (1.49-1) unstable; urgency=low
-
- * New upstream release.
-- uses NumPy rather than its precursor Numeric (Closes: #478457)
-- Martel, Bio.Mindy, Bio.MetaTool, Bio.EUtils, Bio.Saf, Bio.NBRF, and
- Bio.IntelliGenetics are deprecated.
-- Bio.PubMed and the online code in Bio.GenBank are now considered obsolete
- and will be deprecated in a future release.
-- Bio.Fasta is also considered to be obsolete and will eventually be
- deprecated.
- * debian/control:
-- added myself as Uploader.
-- depends on python-numpy instead of python-numeric-ext.
-- moved python-martel to oldlibs section, priority extra as it is
- deprecated, and indicate this in the description.
-- build-depend on python-mysqldb and wise for the tests after building.
- * Use Debhelper 7 (debian/co{ntrol,mpat}).
- * debian/copyright: added myself to the Hall of Fame and updated to latest
-draft of the machine-readable format.
- * debian/watch: makes beta versions lower by prepending a tilde between
-numbers and letters (1.49b - 1.49~b).
- * mmCIF support enabled:
-- debian/patches/01-enable-mmCIF.patch: as the name indicates ;)
-- debian/rules: patch and unpatch through /usr/share/quilt/quilt.make.
-- debian/control: build-depends on quilt.
- * debian/python-biopython-doc.doc-base: corrected index name that was changed
-upstream.
- * debian/patches/02-fix-wise-test.patch: prevents tests failing with Debian's
-version of Wise.
- * debian/rules: perform tests after build.
-
- -- Charles Plessy ple...@debian.org Fri, 23 Jan 2009 22:19:50 +0900
-
-python-biopython (1.47-1) unstable; urgency=low
-
- * New upstream release
- * Standards version 3.8.0
-
- -- Philipp Benner pben...@uni-osnabrueck.de Sun, 03 Aug 2008 14:29:33 +0200
-
-python-biopython (1.45-3) unstable; urgency=low
-
- * Removed dependency on python-numeric-ext since it is already in
-the recommends field
-
- -- Philipp Benner pben...@uni-osnabrueck.de Sun, 01 Jun 2008 10:34:48 +0200
-
-python-biopython (1.45-2) unstable; urgency=low
-
- * Add dependency on python-numeric-ext (Bio.PDB uses MLab from this package)
-
- -- Morten Kjeldgaard m...@bioxray.au.dk Wed, 23 Apr 2008 00:01:16 +0200
-
-python-biopython (1.45-1) unstable; urgency=low
-
- * New upstream release.
- * Added doc-base.
-
- -- Philipp Benner pben...@uni-osnabrueck.de Sat, 29 Mar 2008 12:20:41 +0100
-
-python-biopython
[med-svn] r6516 - in trunk/packages/mgltools/utpackages: . tags
Author: tille Date: 2011-04-10 20:07:13 + (Sun, 10 Apr 2011) New Revision: 6516 Added: trunk/packages/mgltools/utpackages/tags/1.5.4.cvs.20100912-1/ Removed: trunk/packages/mgltools/utpackages/branches/ Log: Tagged old version in SVN ___ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
[med-svn] r6519 - trunk/packages/mgltools/utpackages/tags
Author: tille Date: 2011-04-10 21:05:35 + (Sun, 10 Apr 2011) New Revision: 6519 Added: trunk/packages/mgltools/utpackages/tags/1.5.4.cvs.20100912-2/ Log: Tagged 1.5.4.cvs.20100912-2 ___ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
[med-svn] r6518 - in trunk/packages/mgltools/utpackages/trunk/debian: . patches source
Author: tille Date: 2011-04-10 21:03:04 + (Sun, 10 Apr 2011) New Revision: 6518 Added: trunk/packages/mgltools/utpackages/trunk/debian/patches/ trunk/packages/mgltools/utpackages/trunk/debian/patches/do_not_install_in_build.patch trunk/packages/mgltools/utpackages/trunk/debian/patches/series trunk/packages/mgltools/utpackages/trunk/debian/source/ trunk/packages/mgltools/utpackages/trunk/debian/source/format Removed: trunk/packages/mgltools/utpackages/trunk/debian/mgltools-mslib.postinst.debhelper trunk/packages/mgltools/utpackages/trunk/debian/mgltools-mslib.prerm.debhelper trunk/packages/mgltools/utpackages/trunk/debian/mgltools-mslib.substvars trunk/packages/mgltools/utpackages/trunk/debian/pycompat Modified: trunk/packages/mgltools/utpackages/trunk/debian/changelog trunk/packages/mgltools/utpackages/trunk/debian/compat trunk/packages/mgltools/utpackages/trunk/debian/control trunk/packages/mgltools/utpackages/trunk/debian/rules Log: Remove useless debhelper files; apply patch from latest NMU as quilt patch; Build-Depends: freeglut3 (instead of glut3); dh_python2 instead of python-central; source format 3.0 Modified: trunk/packages/mgltools/utpackages/trunk/debian/changelog === --- trunk/packages/mgltools/utpackages/trunk/debian/changelog 2011-04-10 20:09:36 UTC (rev 6517) +++ trunk/packages/mgltools/utpackages/trunk/debian/changelog 2011-04-10 21:03:04 UTC (rev 6518) @@ -1,3 +1,23 @@ +mgltools-utpackages (1.5.4.cvs.20100912-2) unstable; urgency=low + + * debian/patches/do_not_install_in_build.patch: Do patch from NMU using +quilt + * debian/source/format: 3.0 (quilt) + * debian/control +- Standards-Version: 3.9.2 (no changes needed) +- Build-Depend: freeglut3-dev (instead of libglut3-dev) + Closes: #543698 +- Build-Depends: python-all-dev (= 2.6) (and dropped + python-central) +- Dropped Build-Depends cdbs +- Properly indentation of list in long description + * Debhelper 8.0 (control+contrib) + * debian/rules: switch to short dh syntax which makes +dh_python2 easy +Closes: #616903 + + -- Andreas Tille ti...@debian.org Sun, 10 Apr 2011 22:13:04 +0200 + mgltools-utpackages (1.5.4.cvs.20100912-1.1) unstable; urgency=low * Non-Maintainer Upload. Closes: #605315. Modified: trunk/packages/mgltools/utpackages/trunk/debian/compat === --- trunk/packages/mgltools/utpackages/trunk/debian/compat 2011-04-10 20:09:36 UTC (rev 6517) +++ trunk/packages/mgltools/utpackages/trunk/debian/compat 2011-04-10 21:03:04 UTC (rev 6518) @@ -1 +1 @@ -7 +8 Modified: trunk/packages/mgltools/utpackages/trunk/debian/control === --- trunk/packages/mgltools/utpackages/trunk/debian/control 2011-04-10 20:09:36 UTC (rev 6517) +++ trunk/packages/mgltools/utpackages/trunk/debian/control 2011-04-10 21:03:04 UTC (rev 6518) @@ -6,8 +6,8 @@ XS-Autobuild: yes Uploaders: Steffen Moeller moel...@debian.org, Sargis Dallakyan sar...@scripps.edu, Andreas Tille ti...@debian.org -Build-Depends: debhelper (= 7), python-central (= 0.5.6), cdbs (= 0.4), python-all-dev (= 2.5), swig, mesa-common-dev, libglu1-mesa-dev, libglut3-dev, python-numpy -Standards-Version: 3.9.1.0 +Build-Depends: debhelper (= 8), python-all-dev (= 2.6), swig, mesa-common-dev, libglu1-mesa-dev, freeglut3-dev, python-numpy +Standards-Version: 3.9.2 XS-Python-Version: = 2.5 Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/mgltools/utpackages/trunk/?rev=0sc=0 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/mgltools/utpackages/trunk/ @@ -25,7 +25,9 @@ their docking of chemical compounds. . This distribution contains the following modules: - - UTblurDIST(the blurring algorithm extracted from the PDB Blurring software); - - UTisocontourDIST (the isocontouring library); - - UTUTvolrendDIST (volume rendering library); - - UTmeshDIST (Level set Boundary Interior and Exterior Mesher - LBIEMesher). + - UTblurDIST(the blurring algorithm extracted from the PDB +Blurring software); + - UTisocontourDIST (the isocontouring library); + - UTUTvolrendDIST (volume rendering library); + - UTmeshDIST (Level set Boundary Interior and Exterior Mesher - +LBIEMesher). Deleted: trunk/packages/mgltools/utpackages/trunk/debian/mgltools-mslib.postinst.debhelper === --- trunk/packages/mgltools/utpackages/trunk/debian/mgltools-mslib.postinst.debhelper 2011-04-10 20:09:36 UTC (rev 6517) +++ trunk/packages/mgltools/utpackages/trunk/debian/mgltools-mslib.postinst.debhelper 2011-04-10 21:03:04 UTC (rev 6518) @@ -1,5 +0,0 @@ -# Automatically added by dh_pycentral -if which pycentral /dev/null 21; then - pycentral pkginstall mgltools-mslib -fi -# End
