[med-svn] r16728 - in trunk/packages/logol/tags: . 1.7.0-1/debian 1.7.0-1/debian/patches
Olivier Sallou
osallou at moszumanska.debian.org
Fri Apr 18 13:19:24 UTC 2014
Author: osallou
Date: 2014-04-18 13:19:24 +0000 (Fri, 18 Apr 2014)
New Revision: 16728
Added:
trunk/packages/logol/tags/1.7.0-1/
trunk/packages/logol/tags/1.7.0-1/debian/changelog
trunk/packages/logol/tags/1.7.0-1/debian/control
trunk/packages/logol/tags/1.7.0-1/debian/patches/fixLibPath
trunk/packages/logol/tags/1.7.0-1/debian/patches/setDebianDirs
Removed:
trunk/packages/logol/tags/1.7.0-1/debian/changelog
trunk/packages/logol/tags/1.7.0-1/debian/control
trunk/packages/logol/tags/1.7.0-1/debian/patches/fixLibPath
trunk/packages/logol/tags/1.7.0-1/debian/patches/setDebianDirs
Log:
[svn-buildpackage] Tagging logol 1.7.0-1
Deleted: trunk/packages/logol/tags/1.7.0-1/debian/changelog
===================================================================
--- trunk/packages/logol/trunk/debian/changelog 2014-04-17 15:03:09 UTC (rev 16722)
+++ trunk/packages/logol/tags/1.7.0-1/debian/changelog 2014-04-18 13:19:24 UTC (rev 16728)
@@ -1,126 +0,0 @@
-logol (1.6.10-1) unstable; urgency=low
-
- * New upstream release, fix bug on Hamming error search
-
- -- Olivier Sallou <osallou at debian.org> Sat, 08 Feb 2014 13:17:17 +0100
-
-logol (1.6.9-3) unstable; urgency=low
-
- * d/control,d/patches: Remove rubygems dependency, thanks to
- Cédric Boutillier <boutil at debian.org> (Closes: #735579).
- * Upgrade to Standards 3.9.5.
-
- -- Olivier Sallou <osallou at debian.org> Fri, 17 Jan 2014 09:07:38 +0100
-
-logol (1.6.9-2) unstable; urgency=low
-
- * Fix prolog doc generation (Closes: #730916).
-
- -- Olivier Sallou <osallou at debian.org> Sun, 01 Dec 2013 11:55:42 +0100
-
-logol (1.6.9-1) unstable; urgency=low
-
- * New upstream release (bug fixes, add Windows support
- for Sicstus 4.2.x and Swi-prolog).
-
- -- Olivier Sallou <osallou at debian.org> Mon, 11 Nov 2013 10:11:17 +0100
-
-logol (1.6.6-1) unstable; urgency=low
-
- * New upstream releas (bug fixes on morphisms and doc).
-
- -- Olivier Sallou <osallou at debian.org> Wed, 30 Oct 2013 16:21:09 +0100
-
-logol (1.6.5-1) unstable; urgency=low
-
- * New upstream release (memory footprint optimisation in some cases).
-
- -- Olivier Sallou <osallou at debian.org> Fri, 25 Oct 2013 13:48:22 +0200
-
-logol (1.6.4-1) unstable; urgency=low
-
- * New upstream release fixing bugs
-
- -- Olivier Sallou <osallou at debian.org> Tue, 22 Oct 2013 08:35:45 +0200
-
-logol (1.6.3-1) unstable; urgency=low
-
- * New upstream release fixing important bugs on distance search
- * Remove patch for doc generation after swi-prolog fix
-
- -- Olivier Sallou <osallou at debian.org> Mon, 02 Sep 2013 08:54:46 +0200
-
-logol (1.6.2-3) unstable; urgency=low
-
- * Fix swi-prolog compilation (Closes: #719030).
-
- -- Olivier Sallou <osallou at debian.org> Thu, 08 Aug 2013 10:30:12 +0200
-
-logol (1.6.2-2) unstable; urgency=low
-
- [ Olivier Sallou ]
- * Remove deprecated DM-Upload field.
-
- [ Dmitrijs Ledkovs ]
- * Bump standards version to 3.9.4.
- * Remove empty postinst script.
- * Add dependancy on texlive-latex-extra, needed to fix documentation
- FTBFS with new TeX Live.
-
- -- Dmitrijs Ledkovs <dmitrij.ledkov at ubuntu.com> Mon, 03 Jun 2013 23:36:49 +0100
-
-logol (1.6.2-1) unstable; urgency=low
-
- * New upstream release (bug fixes)
-
- -- Olivier Sallou <osallou at debian.org> Fri, 24 May 2013 14:37:24 +0200
-
-logol (1.6.1-1) unstable; urgency=low
-
- * New upstream release (bug fixes)
-
- -- Olivier Sallou <osallou at debian.org> Tue, 09 Apr 2013 16:57:33 +0200
-
-logol (1.6.0-1) unstable; urgency=low
-
- * New upstream release with bug fixes
-
- -- Olivier Sallou <osallou at debian.org> Fri, 15 Feb 2013 10:05:50 +0100
-
-logol (1.5.0-6) unstable; urgency=low
-
- [ Olivier Sallou ]
- * debian/control: Fix typo in description (Closes: #685079).
- Thanks to Erik Esterer <erik.esterer at gmail.com>
-
- -- Olivier Sallou <osallou at debian.org> Fri, 17 Aug 2012 08:00:58 +0200
-
-logol (1.5.0-5) unstable; urgency=low
-
- [ Olivier Sallou]
- * Transition package to use default java implementation:
- From james.page at ubuntu.com (Closes: #684158)
- - d/control: BD on default-jdk (>= 1:1.6), switch runtime dependency
- to default-jre | java6-runtime.
- - d/rules: Specify source/target = 1.5 to ensure backwards compatible
- bytecode is built.
-
- -- Olivier Sallou <osallou at debian.org> Tue, 07 Aug 2012 15:18:43 +0200
-
-logol (1.5.0-4) unstable; urgency=low
-
- * debian/postinst: remove directory permissions (Closes: #683647).
-
- -- Olivier Sallou <osallou at debian.org> Thu, 02 Aug 2012 17:09:31 +0200
-
-logol (1.5.0-2) unstable; urgency=low
-
- * Support Arch dependent and arch independent separate builds.
-
- -- Olivier Sallou <osallou at debian.org> Sun, 01 Jul 2012 23:49:16 +0200
-
-logol (1.5.0-1) unstable; urgency=low
-
- * Initial release (Closes: #678373).
-
- -- Olivier Sallou <osallou at debian.org> Thu, 21 Jun 2012 12:50:22 +0200
Copied: trunk/packages/logol/tags/1.7.0-1/debian/changelog (from rev 16727, trunk/packages/logol/trunk/debian/changelog)
===================================================================
--- trunk/packages/logol/tags/1.7.0-1/debian/changelog (rev 0)
+++ trunk/packages/logol/tags/1.7.0-1/debian/changelog 2014-04-18 13:19:24 UTC (rev 16728)
@@ -0,0 +1,132 @@
+logol (1.7.0-1) unstable; urgency=low
+
+ * New upstream release
+
+ -- Olivier Sallou <osallou at debian.org> Sat, 08 Feb 2014 13:25:38 +0100
+
+logol (1.6.10-1) unstable; urgency=low
+
+ * New upstream release, fix bug on Hamming error search
+
+ -- Olivier Sallou <osallou at debian.org> Sat, 08 Feb 2014 13:17:17 +0100
+
+logol (1.6.9-3) unstable; urgency=low
+
+ * d/control,d/patches: Remove rubygems dependency, thanks to
+ Cédric Boutillier <boutil at debian.org> (Closes: #735579).
+ * Upgrade to Standards 3.9.5.
+
+ -- Olivier Sallou <osallou at debian.org> Fri, 17 Jan 2014 09:07:38 +0100
+
+logol (1.6.9-2) unstable; urgency=low
+
+ * Fix prolog doc generation (Closes: #730916).
+
+ -- Olivier Sallou <osallou at debian.org> Sun, 01 Dec 2013 11:55:42 +0100
+
+logol (1.6.9-1) unstable; urgency=low
+
+ * New upstream release (bug fixes, add Windows support
+ for Sicstus 4.2.x and Swi-prolog).
+
+ -- Olivier Sallou <osallou at debian.org> Mon, 11 Nov 2013 10:11:17 +0100
+
+logol (1.6.6-1) unstable; urgency=low
+
+ * New upstream releas (bug fixes on morphisms and doc).
+
+ -- Olivier Sallou <osallou at debian.org> Wed, 30 Oct 2013 16:21:09 +0100
+
+logol (1.6.5-1) unstable; urgency=low
+
+ * New upstream release (memory footprint optimisation in some cases).
+
+ -- Olivier Sallou <osallou at debian.org> Fri, 25 Oct 2013 13:48:22 +0200
+
+logol (1.6.4-1) unstable; urgency=low
+
+ * New upstream release fixing bugs
+
+ -- Olivier Sallou <osallou at debian.org> Tue, 22 Oct 2013 08:35:45 +0200
+
+logol (1.6.3-1) unstable; urgency=low
+
+ * New upstream release fixing important bugs on distance search
+ * Remove patch for doc generation after swi-prolog fix
+
+ -- Olivier Sallou <osallou at debian.org> Mon, 02 Sep 2013 08:54:46 +0200
+
+logol (1.6.2-3) unstable; urgency=low
+
+ * Fix swi-prolog compilation (Closes: #719030).
+
+ -- Olivier Sallou <osallou at debian.org> Thu, 08 Aug 2013 10:30:12 +0200
+
+logol (1.6.2-2) unstable; urgency=low
+
+ [ Olivier Sallou ]
+ * Remove deprecated DM-Upload field.
+
+ [ Dmitrijs Ledkovs ]
+ * Bump standards version to 3.9.4.
+ * Remove empty postinst script.
+ * Add dependancy on texlive-latex-extra, needed to fix documentation
+ FTBFS with new TeX Live.
+
+ -- Dmitrijs Ledkovs <dmitrij.ledkov at ubuntu.com> Mon, 03 Jun 2013 23:36:49 +0100
+
+logol (1.6.2-1) unstable; urgency=low
+
+ * New upstream release (bug fixes)
+
+ -- Olivier Sallou <osallou at debian.org> Fri, 24 May 2013 14:37:24 +0200
+
+logol (1.6.1-1) unstable; urgency=low
+
+ * New upstream release (bug fixes)
+
+ -- Olivier Sallou <osallou at debian.org> Tue, 09 Apr 2013 16:57:33 +0200
+
+logol (1.6.0-1) unstable; urgency=low
+
+ * New upstream release with bug fixes
+
+ -- Olivier Sallou <osallou at debian.org> Fri, 15 Feb 2013 10:05:50 +0100
+
+logol (1.5.0-6) unstable; urgency=low
+
+ [ Olivier Sallou ]
+ * debian/control: Fix typo in description (Closes: #685079).
+ Thanks to Erik Esterer <erik.esterer at gmail.com>
+
+ -- Olivier Sallou <osallou at debian.org> Fri, 17 Aug 2012 08:00:58 +0200
+
+logol (1.5.0-5) unstable; urgency=low
+
+ [ Olivier Sallou]
+ * Transition package to use default java implementation:
+ From james.page at ubuntu.com (Closes: #684158)
+ - d/control: BD on default-jdk (>= 1:1.6), switch runtime dependency
+ to default-jre | java6-runtime.
+ - d/rules: Specify source/target = 1.5 to ensure backwards compatible
+ bytecode is built.
+
+ -- Olivier Sallou <osallou at debian.org> Tue, 07 Aug 2012 15:18:43 +0200
+
+logol (1.5.0-4) unstable; urgency=low
+
+ * debian/postinst: remove directory permissions (Closes: #683647).
+
+ -- Olivier Sallou <osallou at debian.org> Thu, 02 Aug 2012 17:09:31 +0200
+
+logol (1.5.0-2) unstable; urgency=low
+
+ * Support Arch dependent and arch independent separate builds.
+
+ -- Olivier Sallou <osallou at debian.org> Sun, 01 Jul 2012 23:49:16 +0200
+
+logol (1.5.0-1) unstable; urgency=low
+
+ * Initial release (Closes: #678373).
+
+ -- Olivier Sallou <osallou at debian.org> Thu, 21 Jun 2012 12:50:22 +0200
Deleted: trunk/packages/logol/tags/1.7.0-1/debian/control
===================================================================
--- trunk/packages/logol/trunk/debian/control 2014-04-17 15:03:09 UTC (rev 16722)
+++ trunk/packages/logol/tags/1.7.0-1/debian/control 2014-04-18 13:19:24 UTC (rev 16728)
@@ -1,44 +0,0 @@
-Source: logol
-Section: science
-Priority: optional
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Uploaders: Olivier Sallou <osallou at debian.org>
-Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/logol/trunk/
-Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/logol/
-Build-Depends: debhelper (>= 8.0.0),default-jdk (>= 1:1.6),ant,ruby,
- gawk, swi-prolog (>=6.4.1-3),
- libbiojava-java, libdrmaa-java, antlr3, libcommons-cli-java,
- libcommons-collections3-java, libcommons-configuration-java,
- libcommons-lang-java, libcommons-logging-java, libxalan2-java,
- libxerces2-java, junit4, libgnumail-java,
- liblog4j1.2-java,texlive, texlive-latex-extra, tex4ht,
- libncursesw5-dev, ruby-cassiopee (>=0.1.12), ant-optional
-Standards-Version: 3.9.5
-Homepage: http://logol.genouest.org
-
-Package: logol
-Architecture: all
-Depends: ${shlibs:Depends}, ${misc:Depends}, default-jre | java6-runtime,
- ruby, gawk,
- libbiojava-java, libdrmaa-java, antlr3, libcommons-cli-java,
- libcommons-collections3-java, libcommons-configuration-java,
- libcommons-lang-java, libcommons-logging-java, libxalan2-java,
- libxerces2-java, libgnumail-java, liblog4j1.2-java,
- ruby-cassiopee (>=0.1.12), logol-bin
-Description: Pattern matching tool using Logol language
- Logol is a pattern matching tool using the Logol language.
- It searches with a specific grammar a pattern in small
- or large sequence (dna, rna, protein). It provides complete
- result matching with the original grammar in the results.
-
-Package: logol-bin
-Architecture: any
-Depends: ${shlibs:Depends}, ${misc:Depends}, swi-prolog(>=6.4.1-3), libncursesw5
-Description: Pattern matching tool using Logol language
- This package contains the Prolog binaries used by Logol to parse
- the sequence and match the grammar.
- .
- Logol is a pattern matching tool using the Logol language.
- It searches with a specific grammar a pattern in small
- or large sequence (dna, rna, protein). It provides complete
- result matching with the original grammar in the results.
Copied: trunk/packages/logol/tags/1.7.0-1/debian/control (from rev 16726, trunk/packages/logol/trunk/debian/control)
===================================================================
--- trunk/packages/logol/tags/1.7.0-1/debian/control (rev 0)
+++ trunk/packages/logol/tags/1.7.0-1/debian/control 2014-04-18 13:19:24 UTC (rev 16728)
@@ -0,0 +1,46 @@
+Source: logol
+Section: science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Olivier Sallou <osallou at debian.org>
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/logol/trunk/
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/logol/
+Build-Depends: debhelper (>= 8.0.0),default-jdk (>= 1:1.6),ant,ruby,
+ gawk, swi-prolog (>=6.4.1-3),
+ libbiojava-java, libdrmaa-java, antlr3, libcommons-cli-java,
+ libcommons-collections3-java, libcommons-configuration-java,
+ libcommons-lang-java, libcommons-logging-java, libxalan2-java,
+ libxerces2-java, junit4, libgnumail-java,
+ liblog4j1.2-java,texlive, texlive-latex-extra, tex4ht,
+ libncursesw5-dev, ant-optional,
+ cassiopee, ruby-cassiopee
+Standards-Version: 3.9.5
+Homepage: http://logol.genouest.org
+
+Package: logol
+Architecture: all
+Depends: ${shlibs:Depends}, ${misc:Depends}, default-jre | java7-runtime,
+ ruby, gawk,
+ libbiojava-java, libdrmaa-java, antlr3, libcommons-cli-java,
+ libcommons-collections3-java, libcommons-configuration-java,
+ libcommons-lang-java, libcommons-logging-java, libxalan2-java,
+ libxerces2-java, libgnumail-java, liblog4j1.2-java,
+ cassiopee, logol-bin
+Suggests: ruby-cassiopee (>=0.1.12)
+Description: Pattern matching tool using Logol language
+ Logol is a pattern matching tool using the Logol language.
+ It searches with a specific grammar a pattern in small
+ or large sequence (dna, rna, protein). It provides complete
+ result matching with the original grammar in the results.
+
+Package: logol-bin
+Architecture: any
+Depends: ${shlibs:Depends}, ${misc:Depends}, swi-prolog(>=6.4.1-3), libncursesw5
+Description: Pattern matching tool using Logol language
+ This package contains the Prolog binaries used by Logol to parse
+ the sequence and match the grammar.
+ .
+ Logol is a pattern matching tool using the Logol language.
+ It searches with a specific grammar a pattern in small
+ or large sequence (dna, rna, protein). It provides complete
+ result matching with the original grammar in the results.
Deleted: trunk/packages/logol/tags/1.7.0-1/debian/patches/fixLibPath
===================================================================
--- trunk/packages/logol/trunk/debian/patches/fixLibPath 2014-04-17 15:03:09 UTC (rev 16722)
+++ trunk/packages/logol/tags/1.7.0-1/debian/patches/fixLibPath 2014-04-18 13:19:24 UTC (rev 16728)
@@ -1,57 +0,0 @@
-Subject: Use debian library for generation
-Description: Debian libraries should be used
-Author: Olivier Sallou <osallou at debian.org>
-Last-Updated: 2012-06-18
---- a/build.xml
-+++ b/build.xml
-@@ -1,5 +1,5 @@
- <?xml version="1.0" encoding="ISO-8859-1"?>
--<project name="LogolMatch" basedir="." default="create-jar">
-+<project name="LogolMatch" basedir="." default="test_swi">
-
- <property environment="env" />
-
-@@ -57,6 +57,9 @@
- <fileset dir="${basedir}/lib">
- <patternset refid="java.libs" />
- </fileset>
-+ <fileset dir="/usr/share/java" >
-+ <patternset refid="java.libs" />
-+ </fileset>
- </path>
-
-
-@@ -141,6 +144,25 @@
- <fileset dir="${basedir}/lib">
- <include name="**/*.jar" />
- </fileset>
-+ <fileset dir="/usr/share/java" >
-+ <include name="biojava.jar"/>
-+ <include name="activation.jar"/>
-+ <include name="bytecode.jar"/>
-+ <include name="drmaa.jar"/>
-+ <include name="antlr3-runtime.jar"/>
-+ <include name="commons-cli.jar"/>
-+ <include name="commons-lang.jar"/>
-+ <include name="commons-collections3.jar"/>
-+ <include name="commons-configuration.jar"/>
-+ <include name="commons-logging.jar"/>
-+ <include name="xalan2.jar"/>
-+ <include name="xercesImpl.jar"/>
-+ <include name="xml-apis.jar"/>
-+ <include name="gnumail.jar"/>
-+ <include name="log4j-1.2.jar"/>
-+ <include name="serializer.jar"/>
-+ <include name="junit4.jar"/>
-+ </fileset>
- </classpath>
- <sysproperty key="logol.install" value="${basedir}" />
- <sysproperty key="log4j.configuration" value="file://${basedir}/log4j.properties" />
-@@ -200,6 +222,7 @@
- <attribute name="Main-Class" value="org.irisa.genouest.logol.Logol" />
- <attribute name="Implementation-Version" value="${version}" />
- <attribute name="Implementation-Build" value="${build.nb}" />
-+ <attribute name="Class-Path" value="/usr/share/java/biojava.jar /usr/share/java/activation.jar /usr/share/java/bytecode.jar /usr/share/java/serializer.jar /usr/share/java/antlr3-runtime.jar /usr/share/java/drmaa.jar /usr/share/java/commons-cli.jar /usr/share/java/commons-collections3.jar /usr/share/java/commons-configuration.jar /usr/share/java/commons-lang.jar /usr/share/java/commons-logging.jar /usr/share/java/xalan2.jar /usr/share/java/xercesImpl.jar /usr/share/java/gnumail.jar /usr/share/java/log4j1.2.jar /usr/share/java/xml-apis.jar" />
- </manifest>
- </jar>
- </target>
Copied: trunk/packages/logol/tags/1.7.0-1/debian/patches/fixLibPath (from rev 16725, trunk/packages/logol/trunk/debian/patches/fixLibPath)
===================================================================
--- trunk/packages/logol/tags/1.7.0-1/debian/patches/fixLibPath (rev 0)
+++ trunk/packages/logol/tags/1.7.0-1/debian/patches/fixLibPath 2014-04-18 13:19:24 UTC (rev 16728)
@@ -0,0 +1,57 @@
+Subject: Use debian library for generation
+Description: Debian libraries should be used
+Author: Olivier Sallou <osallou at debian.org>
+Last-Updated: 2012-06-18
+--- a/build.xml
++++ b/build.xml
+@@ -1,5 +1,5 @@
+ <?xml version="1.0" encoding="ISO-8859-1"?>
+-<project name="LogolMatch" basedir="." default="create-jar">
++<project name="LogolMatch" basedir="." default="test_swi">
+
+ <property environment="env" />
+
+@@ -64,6 +64,9 @@
+ <fileset dir="${basedir}/lib">
+ <patternset refid="java.libs" />
+ </fileset>
++ <fileset dir="/usr/share/java" >
++ <patternset refid="java.libs" />
++ </fileset>
+ </path>
+
+
+@@ -148,6 +151,25 @@
+ <fileset dir="${basedir}/lib">
+ <include name="**/*.jar" />
+ </fileset>
++ <fileset dir="/usr/share/java" >
++ <include name="biojava.jar"/>
++ <include name="activation.jar"/>
++ <include name="bytecode.jar"/>
++ <include name="drmaa.jar"/>
++ <include name="antlr3-runtime.jar"/>
++ <include name="commons-cli.jar"/>
++ <include name="commons-lang.jar"/>
++ <include name="commons-collections3.jar"/>
++ <include name="commons-configuration.jar"/>
++ <include name="commons-logging.jar"/>
++ <include name="xalan2.jar"/>
++ <include name="xercesImpl.jar"/>
++ <include name="xml-apis.jar"/>
++ <include name="gnumail.jar"/>
++ <include name="log4j-1.2.jar"/>
++ <include name="serializer.jar"/>
++ <include name="junit4.jar"/>
++ </fileset>
+ </classpath>
+ <sysproperty key="logol.install" value="${basedir}" />
+ <sysproperty key="log4j.configuration" value="file://${basedir}/log4j.properties" />
+@@ -210,6 +232,7 @@
+ <attribute name="Main-Class" value="org.irisa.genouest.logol.Logol" />
+ <attribute name="Implementation-Version" value="${version}" />
+ <attribute name="Implementation-Build" value="${build.nb}" />
++ <attribute name="Class-Path" value="/usr/share/java/biojava.jar /usr/share/java/activation.jar /usr/share/java/bytecode.jar /usr/share/java/serializer.jar /usr/share/java/antlr3-runtime.jar /usr/share/java/drmaa.jar /usr/share/java/commons-cli.jar /usr/share/java/commons-collections3.jar /usr/share/java/commons-configuration.jar /usr/share/java/commons-lang.jar /usr/share/java/commons-logging.jar /usr/share/java/xalan2.jar /usr/share/java/xercesImpl.jar /usr/share/java/gnumail.jar /usr/share/java/log4j1.2.jar /usr/share/java/xml-apis.jar" />
+ </manifest>
+ </jar>
+ </target>
Deleted: trunk/packages/logol/tags/1.7.0-1/debian/patches/setDebianDirs
===================================================================
--- trunk/packages/logol/trunk/debian/patches/setDebianDirs 2014-04-17 15:03:09 UTC (rev 16722)
+++ trunk/packages/logol/tags/1.7.0-1/debian/patches/setDebianDirs 2014-04-18 13:19:24 UTC (rev 16728)
@@ -1,55 +0,0 @@
-Subject: Use debian dirs for logs
-Description: Debian policy hierarchy use
-Author: Olivier Sallou <osallou at debian.org>
-Last-Updated: 2012-06-18
---- a/log4j.properties
-+++ b/log4j.properties
-@@ -13,6 +13,6 @@
-
-
- log4j.appender.A2=org.apache.log4j.FileAppender
--log4j.appender.A2.File=/home/osallou/CODE/TEST/logol.log
-+log4j.appender.A2.File=/var/log/logol/logol.log
- log4j.appender.A2.layout=org.apache.log4j.PatternLayout
--log4j.appender.A2.layout.ConversionPattern=%d{MM-dd at HH:mm:ss} %-5p (%13F:%L) %3x - %m%n
-\ No newline at end of file
-+log4j.appender.A2.layout.ConversionPattern=%d{MM-dd at HH:mm:ss} %-5p (%13F:%L) %3x - %m%n
---- a/prolog/logol.properties
-+++ b/prolog/logol.properties
-@@ -11,9 +11,9 @@
- #maxMatchSize=30000
- maxMatchSize=0
- # Temporary directory used for the analysis. Should be local to the node
--workingDir=/tmp/Logol
-+workingDir=/tmp/
- # Directory where to place the results. In case of cluster usage, result must be a shared directory between nodes
--dir.result=/tmp/Logol
-+dir.result=/var/lib/logol/results/
- # Maximum length of a spacer when looking forward for a match
- #maxSpacerLength=10000
- maxSpacerLength=0
-@@ -42,4 +42,4 @@
- # Use Vmatch [1] or internal tool [0] (default)
- suffix.tool = 0
- # Vmatch path, if used nad not in path
--suffix.path=
-\ No newline at end of file
-+suffix.path=
---- a/LogolExec.sh
-+++ b/LogolExec.sh
-@@ -21,5 +21,5 @@
- LOGOL_LOG4J=$LOGOL_HOME/log4j.properties
- fi
-
--java -Xms512m -Xmx1024m -Dlogol.install=$LOGOL_HOME -Dlogol.conf=$LOGOL_HOME/prolog/logol.properties -Dlog4j.configuration=file://$LOGOL_LOG4J -classpath $LOGOL_HOME/lib/biojava.jar:$LOGOL_HOME/lib/bytecode:$LOGOL_HOME/lib/mail.jar:$LOGOL_HOME/lib/activation.jar:$LOGOL_HOME/lib/xalan.jar:$LOGOL_HOME/lib/xercesImpl.jar:$LOGOL_HOME/lib/xml-apis.jar:$LOGOL_HOME/lib/serializer.jar:$LOGOL_HOME/lib/commons-configuration-1.5.jar:$LOGOL_HOME/lib/LogolExec.jar:$LOGOL_HOME/lib/commons-cli-1.1.jar:$LOGOL_HOME/lib/commons-collections-3.2.1.jar:$LOGOL_HOME/lib/commons-lang-2.4.jar:$LOGOL_HOME/lib/commons-logging-1.1.1.jar:$LOGOL_HOME/lib/log4j-1.2.15.jar:$LOGOL_HOME/lib/antlrworks-1.4.2.jar org.irisa.genouest.logol.Logol $*
-+java -Xms512m -Xmx1024m -Dlogol.install=$LOGOL_HOME -Dlogol.conf=$LOGOL_HOME/prolog/logol.properties -Dlog4j.configuration=file://$LOGOL_LOG4J -classpath $LOGOL_HOME/lib/biojava.jar:$LOGOL_HOME/lib/bytecode:$LOGOL_HOME/lib/mail.jar:$LOGOL_HOME/lib/activation.jar:$LOGOL_HOME/lib/xalan.jar:$LOGOL_HOME/lib/xercesImpl.jar:$LOGOL_HOME/lib/xml-apis.jar:$LOGOL_HOME/lib/serializer.jar:$LOGOL_HOME/lib/commons-configuration.jar:$LOGOL_HOME/lib/LogolExec.jar:$LOGOL_HOME/lib/commons-cli.jar:$LOGOL_HOME/lib/commons-collections.jar:$LOGOL_HOME/lib/commons-lang.jar:$LOGOL_HOME/lib/commons-logging.jar:$LOGOL_HOME/lib/log4j-1.2.jar:$LOGOL_HOME/lib/antlr.jar org.irisa.genouest.logol.Logol $*
-
---- a/LogolMultiExec.sh
-+++ b/LogolMultiExec.sh
-@@ -25,5 +25,5 @@
-
- echo "calling logol with parameters "$*
-
--java -Xms512m -Xmx1024m -Dlogol.install=$LOGOL_HOME -Dlogol.conf=$LOGOL_HOME/prolog/logol.properties -Dlog4j.configuration=file://$LOGOL_LOG4J -classpath $LOGOL_HOME/lib/xalan.jar:$LOGOL_HOME/lib/xercesImpl.jar:$LOGOL_HOME/lib/xml-apis.jar:$LOGOL_HOME/lib/mail.jar:$LOGOL_HOME/lib/activation.jar:$LOGOL_HOME/lib/biojava.jar:$LOGOL_HOME/lib/bytecode:$LOGOL_HOME/lib/drmaa.jar:$LOGOL_HOME/lib/commons-configuration-1.5.jar:$LOGOL_HOME/lib/LogolExec.jar:$LOGOL_HOME/lib/commons-cli-1.1.jar:$LOGOL_HOME/lib/commons-collections-3.2.1.jar:$LOGOL_HOME/lib/commons-lang-2.4.jar:$LOGOL_HOME/lib/commons-logging-1.1.1.jar:$LOGOL_HOME/lib/log4j-1.2.15.jar:$LOGOL_HOME/lib/antlrworks-1.4.2.jar org.irisa.genouest.logol.dispatcher.Dispatch $*
-+java -Xms512m -Xmx1024m -Dlogol.install=$LOGOL_HOME -Dlogol.conf=$LOGOL_HOME/prolog/logol.properties -Dlog4j.configuration=file://$LOGOL_LOG4J -classpath $LOGOL_HOME/lib/xalan.jar:$LOGOL_HOME/lib/xercesImpl.jar:$LOGOL_HOME/lib/xml-apis.jar:$LOGOL_HOME/lib/mail.jar:$LOGOL_HOME/lib/activation.jar:$LOGOL_HOME/lib/biojava.jar:$LOGOL_HOME/lib/bytecode:$LOGOL_HOME/lib/drmaa.jar:$LOGOL_HOME/lib/commons-configuration.jar:$LOGOL_HOME/lib/LogolExec.jar:$LOGOL_HOME/lib/commons-cli.jar:$LOGOL_HOME/lib/commons-collections.jar:$LOGOL_HOME/lib/commons-lang.jar:$LOGOL_HOME/lib/commons-logging.jar:$LOGOL_HOME/lib/log4j-1.2.jar:$LOGOL_HOME/lib/antlr.jar org.irisa.genouest.logol.dispatcher.Dispatch $*
-
Copied: trunk/packages/logol/tags/1.7.0-1/debian/patches/setDebianDirs (from rev 16724, trunk/packages/logol/trunk/debian/patches/setDebianDirs)
===================================================================
--- trunk/packages/logol/tags/1.7.0-1/debian/patches/setDebianDirs (rev 0)
+++ trunk/packages/logol/tags/1.7.0-1/debian/patches/setDebianDirs 2014-04-18 13:19:24 UTC (rev 16728)
@@ -0,0 +1,55 @@
+Subject: Use debian dirs for logs
+Description: Debian policy hierarchy use
+Author: Olivier Sallou <osallou at debian.org>
+Last-Updated: 2012-06-18
+--- a/log4j.properties
++++ b/log4j.properties
+@@ -13,6 +13,6 @@
+
+
+ log4j.appender.A2=org.apache.log4j.FileAppender
+-log4j.appender.A2.File=/home/osallou/CODE/TEST/logol.log
++log4j.appender.A2.File=/var/log/logol/logol.log
+ log4j.appender.A2.layout=org.apache.log4j.PatternLayout
+-log4j.appender.A2.layout.ConversionPattern=%d{MM-dd at HH:mm:ss} %-5p (%13F:%L) %3x - %m%n
+\ No newline at end of file
++log4j.appender.A2.layout.ConversionPattern=%d{MM-dd at HH:mm:ss} %-5p (%13F:%L) %3x - %m%n
+--- a/prolog/logol.properties
++++ b/prolog/logol.properties
+@@ -11,9 +11,9 @@
+ #maxMatchSize=30000
+ maxMatchSize=0
+ # Temporary directory used for the analysis. Should be local to the node
+-workingDir=/tmp/Logol
++workingDir=/tmp/
+ # Directory where to place the results. In case of cluster usage, result must be a shared directory between nodes
+-dir.result=/tmp/Logol
++dir.result=/var/lib/logol/results/
+ # Maximum length of a spacer when looking forward for a match
+ #maxSpacerLength=10000
+ maxSpacerLength=0
+@@ -42,4 +42,4 @@
+ # Use Cassiopee [2] (default) or Vmatch [1] or ruby cassiopee gem [0]
+ suffix.tool = 2
+ # Vmatch path, if used nad not in path
+-suffix.path=
+\ No newline at end of file
++suffix.path=
+--- a/LogolExec.sh
++++ b/LogolExec.sh
+@@ -21,5 +21,5 @@
+ LOGOL_LOG4J=$LOGOL_HOME/log4j.properties
+ fi
+
+-java -Xms512m -Xmx1024m -Dlogol.install=$LOGOL_HOME -Dlogol.conf=$LOGOL_HOME/prolog/logol.properties -Dlog4j.configuration=file://$LOGOL_LOG4J -classpath $LOGOL_HOME/lib/biojava.jar:$LOGOL_HOME/lib/bytecode:$LOGOL_HOME/lib/mail.jar:$LOGOL_HOME/lib/activation.jar:$LOGOL_HOME/lib/xalan.jar:$LOGOL_HOME/lib/xercesImpl.jar:$LOGOL_HOME/lib/xml-apis.jar:$LOGOL_HOME/lib/serializer.jar:$LOGOL_HOME/lib/commons-configuration-1.5.jar:$LOGOL_HOME/lib/LogolExec.jar:$LOGOL_HOME/lib/commons-cli-1.1.jar:$LOGOL_HOME/lib/commons-collections-3.2.1.jar:$LOGOL_HOME/lib/commons-lang-2.4.jar:$LOGOL_HOME/lib/commons-logging-1.1.1.jar:$LOGOL_HOME/lib/log4j-1.2.15.jar:$LOGOL_HOME/lib/antlrworks-1.4.2.jar org.irisa.genouest.logol.Logol $*
++java -Xms512m -Xmx1024m -Dlogol.install=$LOGOL_HOME -Dlogol.conf=$LOGOL_HOME/prolog/logol.properties -Dlog4j.configuration=file://$LOGOL_LOG4J -classpath $LOGOL_HOME/lib/biojava.jar:$LOGOL_HOME/lib/bytecode:$LOGOL_HOME/lib/mail.jar:$LOGOL_HOME/lib/activation.jar:$LOGOL_HOME/lib/xalan.jar:$LOGOL_HOME/lib/xercesImpl.jar:$LOGOL_HOME/lib/xml-apis.jar:$LOGOL_HOME/lib/serializer.jar:$LOGOL_HOME/lib/commons-configuration.jar:$LOGOL_HOME/lib/LogolExec.jar:$LOGOL_HOME/lib/commons-cli.jar:$LOGOL_HOME/lib/commons-collections.jar:$LOGOL_HOME/lib/commons-lang.jar:$LOGOL_HOME/lib/commons-logging.jar:$LOGOL_HOME/lib/log4j-1.2.jar:$LOGOL_HOME/lib/antlr.jar org.irisa.genouest.logol.Logol $*
+
+--- a/LogolMultiExec.sh
++++ b/LogolMultiExec.sh
+@@ -25,5 +25,5 @@
+
+ echo "calling logol with parameters "$*
+
+-java -Xms512m -Xmx1024m -Dlogol.install=$LOGOL_HOME -Dlogol.conf=$LOGOL_HOME/prolog/logol.properties -Dlog4j.configuration=file://$LOGOL_LOG4J -classpath $LOGOL_HOME/lib/xalan.jar:$LOGOL_HOME/lib/xercesImpl.jar:$LOGOL_HOME/lib/xml-apis.jar:$LOGOL_HOME/lib/mail.jar:$LOGOL_HOME/lib/activation.jar:$LOGOL_HOME/lib/biojava.jar:$LOGOL_HOME/lib/bytecode:$LOGOL_HOME/lib/drmaa.jar:$LOGOL_HOME/lib/commons-configuration-1.5.jar:$LOGOL_HOME/lib/LogolExec.jar:$LOGOL_HOME/lib/commons-cli-1.1.jar:$LOGOL_HOME/lib/commons-collections-3.2.1.jar:$LOGOL_HOME/lib/commons-lang-2.4.jar:$LOGOL_HOME/lib/commons-logging-1.1.1.jar:$LOGOL_HOME/lib/log4j-1.2.15.jar:$LOGOL_HOME/lib/antlrworks-1.4.2.jar org.irisa.genouest.logol.dispatcher.Dispatch $*
++java -Xms512m -Xmx1024m -Dlogol.install=$LOGOL_HOME -Dlogol.conf=$LOGOL_HOME/prolog/logol.properties -Dlog4j.configuration=file://$LOGOL_LOG4J -classpath $LOGOL_HOME/lib/xalan.jar:$LOGOL_HOME/lib/xercesImpl.jar:$LOGOL_HOME/lib/xml-apis.jar:$LOGOL_HOME/lib/mail.jar:$LOGOL_HOME/lib/activation.jar:$LOGOL_HOME/lib/biojava.jar:$LOGOL_HOME/lib/bytecode:$LOGOL_HOME/lib/drmaa.jar:$LOGOL_HOME/lib/commons-configuration.jar:$LOGOL_HOME/lib/LogolExec.jar:$LOGOL_HOME/lib/commons-cli.jar:$LOGOL_HOME/lib/commons-collections.jar:$LOGOL_HOME/lib/commons-lang.jar:$LOGOL_HOME/lib/commons-logging.jar:$LOGOL_HOME/lib/log4j-1.2.jar:$LOGOL_HOME/lib/antlr.jar org.irisa.genouest.logol.dispatcher.Dispatch $*
+
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