[med-svn] r12312 - in trunk/packages/biomaj/tags: . 1.2.0-9/debian 1.2.0-9/debian/patches
Olivier Sallou
osallou at alioth.debian.org
Thu Oct 4 16:34:00 UTC 2012
Author: osallou
Date: 2012-10-04 16:33:59 +0000 (Thu, 04 Oct 2012)
New Revision: 12312
Added:
trunk/packages/biomaj/tags/1.2.0-9/
trunk/packages/biomaj/tags/1.2.0-9/debian/changelog
trunk/packages/biomaj/tags/1.2.0-9/debian/patches/series
trunk/packages/biomaj/tags/1.2.0-9/debian/patches/set_env_file_for_debian
Removed:
trunk/packages/biomaj/tags/1.2.0-9/debian/changelog
trunk/packages/biomaj/tags/1.2.0-9/debian/patches/series
Log:
[svn-buildpackage] Tagging biomaj 1.2.0-9
Deleted: trunk/packages/biomaj/tags/1.2.0-9/debian/changelog
===================================================================
--- trunk/packages/biomaj/trunk/debian/changelog 2012-10-03 08:53:59 UTC (rev 12308)
+++ trunk/packages/biomaj/tags/1.2.0-9/debian/changelog 2012-10-04 16:33:59 UTC (rev 12312)
@@ -1,127 +0,0 @@
-biomaj (1.2.0-8) unstable; urgency=low
-
- [ Olivier Sallou ]
- * debian/copyright: Fix copyright URL
- * dbeian/control: Switch to Standards 3.9.4
- * debian/rules, debian/postinst, debian/postrm: fix conffile update
- conflicting with Debian Policy (Closes: #688433).
-
- -- Olivier Sallou <osallou at debian.org> Wed, 01 Aug 2012 15:59:55 +0200
-
-biomaj (1.2.0-7) unstable; urgency=low
-
- [ Olivier Sallou ]
- Patch from James Page <james.page at ubuntu.com> (Closes: #683517)
- * Transition package to use default java implementation:
- - d/rules: Specify source/target = 1.5 to ensure bytecode is backwards
- compatible.
- - d/control: BD on default-jdk only. Switch runtime dependency to
- default-jre | java6-runtime.
-
- -- Olivier Sallou <osallou at debian.org> Wed, 01 Aug 2012 14:58:41 +0200
-
-biomaj (1.2.0-6) unstable; urgency=low
-
- [ Olivier Sallou ]
- * Clean files for purge (Closes: #678490).
-
- [ Andreas Tille ]
- * debian/upstream: Enhance upstream information (authors format, missing
- fields)
-
- [Debconf translation updates]
- * French (Olivier Sallou, proofread by the French l10n team).
-
- -- Olivier Sallou <osallou at debian.org> Tue, 08 May 2012 22:46:34 +0200
-
-biomaj (1.2.0-5) unstable; urgency=low
-
- * Add missing file to package to get the console help (Closes: #658833)
- - biomaj.install
-
- -- Olivier Sallou <olivier.sallou at irisa.fr> Wed, 01 Feb 2012 10:00:03 +0100
-
-biomaj (1.2.0-4) unstable; urgency=low
-
- * [Olivier Sallou]
- * config: remove biomaj/jdk_home, not needed anymore
-
- * Debconf templates and debian/control reviewed by the debian-l10n-
- english team as part of the Smith review project. Closes: #653408
- * [Debconf translation updates]
- * Russian (Yuri Kozlov). Closes: #656111
- * Italian (Francesca Ciceri). Closes: #656254
- * French (Olivier Sallou). Closes: #656066
- * Czech (Michal Simunek). Closes: #656670
- * Dutch; (Jeroen Schot). Closes: #657009
- * German (Chris Leick). Closes: #657024
- * Danish (Joe Hansen). Closes: #657341
- * Indonesian (Mahyuddin Susanto). Closes: #657463
- * Spanish; (Camaleón). Closes: #657491
- * Polish (Michał Kułach). Closes: #657512
- * Swedish (Martin Bagge / brother). Closes: #657548
- * Portuguese (Miguel Figueiredo). Closes: #657664
-
-
- -- Olivier Sallou <olivier.sallou at irisa.fr> Fri, 16 Dec 2011 15:53:10 +0100
-
-biomaj (1.2.0-3) unstable; urgency=low
-
- * Add Portuguese translation for debconf (Closes: #651680)
- - Thanks to Pedro Ribeiro <p.m42.ribeiro at gmail.com>
-
- -- Olivier Sallou <olivier.sallou at irisa.fr> Fri, 16 Dec 2011 09:25:22 +0100
-
-biomaj (1.2.0-2) unstable; urgency=low
-
- * Fix Mysql dependency name.
-
- -- Olivier Sallou <olivier.sallou at irisa.fr> Fri, 11 Nov 2011 10:25:39 +0100
-
-biomaj (1.2.0-1) unstable; urgency=low
-
- * New upstream release with new features and bug fixes.
- * Change in database model, migration script ran at install
- * New post processes added in default install (emboss)
-
- -- Olivier Sallou <olivier.sallou at irisa.fr> Thu, 18 Aug 2011 09:55:23 +0200
-
-biomaj (1.1.0-3) unstable; urgency=low
-
- * Change priority in debconf message for jdk home
- * Add spanish translation of debconf:
- Thanks to Camaleón <noelamac at gmail.com>
- Closes: #632952
- * Add sweden translation of debconf:
- Thanks to Martin Bagge <brother at bsnet.se>
- Closes: #628927
- * Add german translation of debconf:
- Thanks to Chris Leick <c.leick at vollbio.de>
- Closes: #629455
- * Change openjdk dependency to add default-jdk and sun jdk possible depends
- Closes: #633523
-
- -- Olivier Sallou <olivier.sallou at irisa.fr> Thu, 11 Jul 2011 09:55:23 +0200
-
-biomaj (1.1.0-2) unstable; urgency=low
-
- * Add russian translation of debconf:
- Thanks to Yuri Kozlov <yuray at komyakino.ru>
- Closes: #623807
- * debian/patches/fix623558_remove_pid:
- Remove unnecessary pid file creation
- Closes: #623558
- * debian/postrm,debian/preinst:
- Issue for smooth upgrade, require old package
- removal then new package install
- Closes: #624284
-
-
- -- Olivier Sallou <olivier.sallou at irisa.fr> Fri, 22 Apr 2011 16:27:11 +0200
-
-biomaj (1.1.0-1) unstable; urgency=low
-
- * Initial release (Closes: #609038)
- First Debian package, fixed copyright file to list all licenses
-
- -- Olivier Sallou <olivier.sallou at irisa.fr> Wed, 05 Jan 2011 10:39:00 +0100
Copied: trunk/packages/biomaj/tags/1.2.0-9/debian/changelog (from rev 12311, trunk/packages/biomaj/trunk/debian/changelog)
===================================================================
--- trunk/packages/biomaj/tags/1.2.0-9/debian/changelog (rev 0)
+++ trunk/packages/biomaj/tags/1.2.0-9/debian/changelog 2012-10-04 16:33:59 UTC (rev 12312)
@@ -0,0 +1,135 @@
+biomaj (1.2.0-9) unstable; urgency=low
+
+ * debian/patches/set_env_file_for_debian:
+ Prevent env.sh file update by program at install
+ (Closes: #688433)
+
+ -- Olivier Sallou <osallou at debian.org> Wed, 03 Oct 2012 13:54:44 +0200
+
+biomaj (1.2.0-8) unstable; urgency=low
+
+ [ Olivier Sallou ]
+ * debian/copyright: Fix copyright URL
+ * debian/control: Switch to Standards 3.9.4
+ * debian/rules, debian/postinst, debian/postrm: fix conffile update
+ conflicting with Debian Policy (Closes: #688433).
+
+ -- Olivier Sallou <osallou at debian.org> Wed, 01 Aug 2012 15:59:55 +0200
+
+biomaj (1.2.0-7) unstable; urgency=low
+
+ [ Olivier Sallou ]
+ Patch from James Page <james.page at ubuntu.com> (Closes: #683517)
+ * Transition package to use default java implementation:
+ - d/rules: Specify source/target = 1.5 to ensure bytecode is backwards
+ compatible.
+ - d/control: BD on default-jdk only. Switch runtime dependency to
+ default-jre | java6-runtime.
+
+ -- Olivier Sallou <osallou at debian.org> Wed, 01 Aug 2012 14:58:41 +0200
+
+biomaj (1.2.0-6) unstable; urgency=low
+
+ [ Olivier Sallou ]
+ * Clean files for purge (Closes: #678490).
+
+ [ Andreas Tille ]
+ * debian/upstream: Enhance upstream information (authors format, missing
+ fields)
+
+ [Debconf translation updates]
+ * French (Olivier Sallou, proofread by the French l10n team).
+
+ -- Olivier Sallou <osallou at debian.org> Tue, 08 May 2012 22:46:34 +0200
+
+biomaj (1.2.0-5) unstable; urgency=low
+
+ * Add missing file to package to get the console help (Closes: #658833)
+ - biomaj.install
+
+ -- Olivier Sallou <olivier.sallou at irisa.fr> Wed, 01 Feb 2012 10:00:03 +0100
+
+biomaj (1.2.0-4) unstable; urgency=low
+
+ * [Olivier Sallou]
+ * config: remove biomaj/jdk_home, not needed anymore
+
+ * Debconf templates and debian/control reviewed by the debian-l10n-
+ english team as part of the Smith review project. Closes: #653408
+ * [Debconf translation updates]
+ * Russian (Yuri Kozlov). Closes: #656111
+ * Italian (Francesca Ciceri). Closes: #656254
+ * French (Olivier Sallou). Closes: #656066
+ * Czech (Michal Simunek). Closes: #656670
+ * Dutch; (Jeroen Schot). Closes: #657009
+ * German (Chris Leick). Closes: #657024
+ * Danish (Joe Hansen). Closes: #657341
+ * Indonesian (Mahyuddin Susanto). Closes: #657463
+ * Spanish; (Camaleón). Closes: #657491
+ * Polish (Michał Kułach). Closes: #657512
+ * Swedish (Martin Bagge / brother). Closes: #657548
+ * Portuguese (Miguel Figueiredo). Closes: #657664
+
+
+ -- Olivier Sallou <olivier.sallou at irisa.fr> Fri, 16 Dec 2011 15:53:10 +0100
+
+biomaj (1.2.0-3) unstable; urgency=low
+
+ * Add Portuguese translation for debconf (Closes: #651680)
+ - Thanks to Pedro Ribeiro <p.m42.ribeiro at gmail.com>
+
+ -- Olivier Sallou <olivier.sallou at irisa.fr> Fri, 16 Dec 2011 09:25:22 +0100
+
+biomaj (1.2.0-2) unstable; urgency=low
+
+ * Fix Mysql dependency name.
+
+ -- Olivier Sallou <olivier.sallou at irisa.fr> Fri, 11 Nov 2011 10:25:39 +0100
+
+biomaj (1.2.0-1) unstable; urgency=low
+
+ * New upstream release with new features and bug fixes.
+ * Change in database model, migration script ran at install
+ * New post processes added in default install (emboss)
+
+ -- Olivier Sallou <olivier.sallou at irisa.fr> Thu, 18 Aug 2011 09:55:23 +0200
+
+biomaj (1.1.0-3) unstable; urgency=low
+
+ * Change priority in debconf message for jdk home
+ * Add spanish translation of debconf:
+ Thanks to Camaleón <noelamac at gmail.com>
+ Closes: #632952
+ * Add sweden translation of debconf:
+ Thanks to Martin Bagge <brother at bsnet.se>
+ Closes: #628927
+ * Add german translation of debconf:
+ Thanks to Chris Leick <c.leick at vollbio.de>
+ Closes: #629455
+ * Change openjdk dependency to add default-jdk and sun jdk possible depends
+ Closes: #633523
+
+ -- Olivier Sallou <olivier.sallou at irisa.fr> Thu, 11 Jul 2011 09:55:23 +0200
+
+biomaj (1.1.0-2) unstable; urgency=low
+
+ * Add russian translation of debconf:
+ Thanks to Yuri Kozlov <yuray at komyakino.ru>
+ Closes: #623807
+ * debian/patches/fix623558_remove_pid:
+ Remove unnecessary pid file creation
+ Closes: #623558
+ * debian/postrm,debian/preinst:
+ Issue for smooth upgrade, require old package
+ removal then new package install
+ Closes: #624284
+
+
+ -- Olivier Sallou <olivier.sallou at irisa.fr> Fri, 22 Apr 2011 16:27:11 +0200
+
+biomaj (1.1.0-1) unstable; urgency=low
+
+ * Initial release (Closes: #609038)
+ First Debian package, fixed copyright file to list all licenses
+
+ -- Olivier Sallou <olivier.sallou at irisa.fr> Wed, 05 Jan 2011 10:39:00 +0100
Deleted: trunk/packages/biomaj/tags/1.2.0-9/debian/patches/series
===================================================================
--- trunk/packages/biomaj/trunk/debian/patches/series 2012-10-03 08:53:59 UTC (rev 12308)
+++ trunk/packages/biomaj/tags/1.2.0-9/debian/patches/series 2012-10-04 16:33:59 UTC (rev 12312)
@@ -1 +0,0 @@
-removeSqlToolDependency
Copied: trunk/packages/biomaj/tags/1.2.0-9/debian/patches/series (from rev 12310, trunk/packages/biomaj/trunk/debian/patches/series)
===================================================================
--- trunk/packages/biomaj/tags/1.2.0-9/debian/patches/series (rev 0)
+++ trunk/packages/biomaj/tags/1.2.0-9/debian/patches/series 2012-10-04 16:33:59 UTC (rev 12312)
@@ -0,0 +1,2 @@
+removeSqlToolDependency
+set_env_file_for_debian
Copied: trunk/packages/biomaj/tags/1.2.0-9/debian/patches/set_env_file_for_debian (from rev 12310, trunk/packages/biomaj/trunk/debian/patches/set_env_file_for_debian)
===================================================================
--- trunk/packages/biomaj/tags/1.2.0-9/debian/patches/set_env_file_for_debian (rev 0)
+++ trunk/packages/biomaj/tags/1.2.0-9/debian/patches/set_env_file_for_debian 2012-10-04 16:33:59 UTC (rev 12312)
@@ -0,0 +1,28 @@
+Subject: Prevent shipped file modification
+Description: Program updates a shipped file at install
+ and upgrades. Patch sets the file once and prevent
+ program update.
+Forwarded: not-needed
+Author: Olivier Sallou <osallou at debian.org>
+Last-Updated: 2012-10-04
+Bug: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=688433
+--- a/usr/share/biomaj/bin/Configurator.java
++++ b/usr/share/biomaj/bin/Configurator.java
+@@ -117,7 +117,7 @@
+ /*
+ * Creer env.sh
+ */
+- createEnv(params.get("ant_home"), params.get("java_home"));
++ //createEnv(params.get("ant_home"), params.get("java_home"));
+
+
+ log("Configuration complete");
+--- a/usr/share/biomaj/bin/env.sh
++++ b/usr/share/biomaj/bin/env.sh
+@@ -1 +1,4 @@
+-#!/bin/sh
+\ No newline at end of file
++#!/bin/sh
++export JAVA_HOME=$(readlink -f /usr/bin/javac | sed "s:bin/javac::")
++export ANT_HOME=/usr/share/ant
++export BIOMAJ_ROOT=/usr/share/biomaj
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