[med-svn] r16967 - in trunk/packages/biojava/tags: . 1:1.7.1-5/debian
Olivier Sallou
osallou at moszumanska.debian.org
Tue May 20 13:14:45 UTC 2014
Author: osallou
Date: 2014-05-20 13:14:45 +0000 (Tue, 20 May 2014)
New Revision: 16967
Added:
trunk/packages/biojava/tags/1:1.7.1-5/
trunk/packages/biojava/tags/1:1.7.1-5/debian/changelog
trunk/packages/biojava/tags/1:1.7.1-5/debian/control
Removed:
trunk/packages/biojava/tags/1:1.7.1-5/debian/changelog
trunk/packages/biojava/tags/1:1.7.1-5/debian/control
Log:
[svn-buildpackage] Tagging biojava-live 1:1.7.1-5
Deleted: trunk/packages/biojava/tags/1:1.7.1-5/debian/changelog
===================================================================
--- trunk/packages/biojava/branches/1.7.1/debian/changelog 2014-05-20 12:21:32 UTC (rev 16964)
+++ trunk/packages/biojava/tags/1:1.7.1-5/debian/changelog 2014-05-20 13:14:45 UTC (rev 16967)
@@ -1,116 +0,0 @@
-biojava-live (1:1.7.1-4) unstable; urgency=low
-
- [ Andreas Tille ]
- * debian/upstream:
- - Author conform to BibTeX syntax
- - Add eprint
-
- [ Olivier Sallou ]
- * Fix watch file to follow biojava v1, not v3
-
- -- Olivier Sallou <osallou at debian.org> Fri, 31 Jan 2014 21:49:37 +0100
-
-biojava-live (1:1.7.1-3) unstable; urgency=low
-
- * Use libcommons-collections3-java instead of libcommons-collections-java
-
- -- Olivier Sallou <osallou at debian.org> Tue, 10 Sep 2013 09:39:36 +0200
-
-biojava-live (1:1.7.1-2) unstable; urgency=low
-
- [ Jari Aalto ]
- * Remove quilt and upgrade to packaging format "3.0 quilt" which
- includes patch management built-in.
- * Update buildxml.patch to DEP-3 and run "quilt refresh" to make it
- apply cleanly.
- * Update to Standards-Version to 3.9.3 (no changes needed) and debhelper 9.
- * Update obsolete depends default-jdk-builddep to default-jdk.
- Closes: #669122
- * Fix wrong-section-according-to-package-name (Lintian) by changing
- section from science to java.
- * Fix needless-dependency-on-jre (Lintian) by removing jre dependencies.
- * Fix duplicate-short-description (Lintian).
- * Fix extended-description-is-probably-too-short (Lintian).
-
- [ Andreas Tille ]
- * debian/control:
- - Short-Desc: Java 1.7 API is missleading regarding JDK version - rather
- add the version at the end and declare the version-less metapackage as
- default version
- - Dropped default-jre-headless from Depends according to Java policy
- - Fixed Vcs fields
- * debian/watch: enable detecting new versions
- * debian/{control,upstream}: Moved citations from long description to
- upstream file
- * libbiojava*.lintian: removed because now useless
- * debian/compat: 9
- * debian/copyright: Rewritten to be compliant with DEP5 and verified
- using `cme fix dpkg-copyright`
- * debian/rules: s/dh_clean -k/dh_prep/
-
- -- Andreas Tille <tille at debian.org> Wed, 18 Apr 2012 08:50:31 +0200
-
-biojava-live (1:1.7.1-1) unstable; urgency=low
-
- * New upstream version.
- * New epoch
- - because of an unfortunate versioning of previous upload
- - to indicate the now happening BioJava Hackathon in Cambridge, UK
-
- -- Steffen Moeller <moeller at debian.org> Wed, 20 Jan 2010 02:08:17 +0100
-
-biojava-live (1.7.svn.20090419-3) unstable; urgency=low
-
- * debian/control:
- - Conflicts: libbiojava1.6-java
- - Replaces: libbiojava1.6-java
- - Enhanced long description of libbiojava-java-doc
- Closes: #522269
- * debian/rules: set JAVA_HOME to enable proper clean target
-
- -- Andreas Tille <tille at debian.org> Fri, 26 Jun 2009 10:01:10 +0200
-
-biojava-live (1.7.svn.20090419-2) unstable; urgency=low
-
- * Add Build Depends: ant-optional
- Closes: #533896
- * Standards-Version: 3.8.2 (no changes needed)
-
- -- Andreas Tille <tille at debian.org> Mon, 22 Jun 2009 09:32:20 +0200
-
-biojava-live (1.7.svn.20090419-1) unstable; urgency=low
-
- * New upstream version, addressing structures.
- * Removed dependency on libjgrapht, so biojava can go to main.
- * Conformance to 3.8.1 (no changes required).
-
- -- Steffen Moeller <moeller at debian.org> Sun, 19 Apr 2009 18:30:54 +0200
-
-biojava-live (1.6.1.svn.20090306-1) experimental; urgency=low
-
- [ Andreas Tille ]
- * Initial release (Closes:#491025).
-
- [ Steffen Moeller ]
- * Added dependency to quilt.
- * Moved -doc to section doc.
- * Added symlinks to jar file with pseudo-soname
- * Need to be placed in contrib section as a start because of dependency
- to libjgrapht that is still in contrib.
-
- -- Andreas Tille <tille at debian.org> Mon, 09 Mar 2009 13:50:45 +0100
-
-biojava-live (1.6.0.svn.20080716-1) UNRELEASED; urgency=low
-
- * Renamed to biojava-live in analogy to upstream's name
- and to keep the opportunity to add a biojava meta package
- later on.
- * License issue fixed that led to previous rejection of biojava.
-
- -- Steffen Moeller <moeller at debian.org> Sun, 13 Jul 2008 15:56:27 +0200
-
-biojava (1.5-1) UNRELEASED; urgency=low
-
- * New upstream release.
-
- -- Steffen Moeller <moeller at debian.org> Tue, 03 Jul 2007 01:51:06 +0200
Copied: trunk/packages/biojava/tags/1:1.7.1-5/debian/changelog (from rev 16965, trunk/packages/biojava/branches/1.7.1/debian/changelog)
===================================================================
--- trunk/packages/biojava/tags/1:1.7.1-5/debian/changelog (rev 0)
+++ trunk/packages/biojava/tags/1:1.7.1-5/debian/changelog 2014-05-20 13:14:45 UTC (rev 16967)
@@ -0,0 +1,123 @@
+biojava-live (1:1.7.1-5) unstable; urgency=medium
+
+ * d/control: use libcommons-collections3 instead of
+ libcommons-collection in runtime deps (Closes: #748473).
+
+ -- Olivier Sallou <osallou at debian.org> Tue, 20 May 2014 15:03:23 +0200
+
+biojava-live (1:1.7.1-4) unstable; urgency=low
+
+ [ Andreas Tille ]
+ * debian/upstream:
+ - Author conform to BibTeX syntax
+ - Add eprint
+
+ [ Olivier Sallou ]
+ * Fix watch file to follow biojava v1, not v3
+
+ -- Olivier Sallou <osallou at debian.org> Fri, 31 Jan 2014 21:49:37 +0100
+
+biojava-live (1:1.7.1-3) unstable; urgency=low
+
+ * Use libcommons-collections3-java instead of libcommons-collections-java
+
+ -- Olivier Sallou <osallou at debian.org> Tue, 10 Sep 2013 09:39:36 +0200
+
+biojava-live (1:1.7.1-2) unstable; urgency=low
+
+ [ Jari Aalto ]
+ * Remove quilt and upgrade to packaging format "3.0 quilt" which
+ includes patch management built-in.
+ * Update buildxml.patch to DEP-3 and run "quilt refresh" to make it
+ apply cleanly.
+ * Update to Standards-Version to 3.9.3 (no changes needed) and debhelper 9.
+ * Update obsolete depends default-jdk-builddep to default-jdk.
+ Closes: #669122
+ * Fix wrong-section-according-to-package-name (Lintian) by changing
+ section from science to java.
+ * Fix needless-dependency-on-jre (Lintian) by removing jre dependencies.
+ * Fix duplicate-short-description (Lintian).
+ * Fix extended-description-is-probably-too-short (Lintian).
+
+ [ Andreas Tille ]
+ * debian/control:
+ - Short-Desc: Java 1.7 API is missleading regarding JDK version - rather
+ add the version at the end and declare the version-less metapackage as
+ default version
+ - Dropped default-jre-headless from Depends according to Java policy
+ - Fixed Vcs fields
+ * debian/watch: enable detecting new versions
+ * debian/{control,upstream}: Moved citations from long description to
+ upstream file
+ * libbiojava*.lintian: removed because now useless
+ * debian/compat: 9
+ * debian/copyright: Rewritten to be compliant with DEP5 and verified
+ using `cme fix dpkg-copyright`
+ * debian/rules: s/dh_clean -k/dh_prep/
+
+ -- Andreas Tille <tille at debian.org> Wed, 18 Apr 2012 08:50:31 +0200
+
+biojava-live (1:1.7.1-1) unstable; urgency=low
+
+ * New upstream version.
+ * New epoch
+ - because of an unfortunate versioning of previous upload
+ - to indicate the now happening BioJava Hackathon in Cambridge, UK
+
+ -- Steffen Moeller <moeller at debian.org> Wed, 20 Jan 2010 02:08:17 +0100
+
+biojava-live (1.7.svn.20090419-3) unstable; urgency=low
+
+ * debian/control:
+ - Conflicts: libbiojava1.6-java
+ - Replaces: libbiojava1.6-java
+ - Enhanced long description of libbiojava-java-doc
+ Closes: #522269
+ * debian/rules: set JAVA_HOME to enable proper clean target
+
+ -- Andreas Tille <tille at debian.org> Fri, 26 Jun 2009 10:01:10 +0200
+
+biojava-live (1.7.svn.20090419-2) unstable; urgency=low
+
+ * Add Build Depends: ant-optional
+ Closes: #533896
+ * Standards-Version: 3.8.2 (no changes needed)
+
+ -- Andreas Tille <tille at debian.org> Mon, 22 Jun 2009 09:32:20 +0200
+
+biojava-live (1.7.svn.20090419-1) unstable; urgency=low
+
+ * New upstream version, addressing structures.
+ * Removed dependency on libjgrapht, so biojava can go to main.
+ * Conformance to 3.8.1 (no changes required).
+
+ -- Steffen Moeller <moeller at debian.org> Sun, 19 Apr 2009 18:30:54 +0200
+
+biojava-live (1.6.1.svn.20090306-1) experimental; urgency=low
+
+ [ Andreas Tille ]
+ * Initial release (Closes:#491025).
+
+ [ Steffen Moeller ]
+ * Added dependency to quilt.
+ * Moved -doc to section doc.
+ * Added symlinks to jar file with pseudo-soname
+ * Need to be placed in contrib section as a start because of dependency
+ to libjgrapht that is still in contrib.
+
+ -- Andreas Tille <tille at debian.org> Mon, 09 Mar 2009 13:50:45 +0100
+
+biojava-live (1.6.0.svn.20080716-1) UNRELEASED; urgency=low
+
+ * Renamed to biojava-live in analogy to upstream's name
+ and to keep the opportunity to add a biojava meta package
+ later on.
+ * License issue fixed that led to previous rejection of biojava.
+
+ -- Steffen Moeller <moeller at debian.org> Sun, 13 Jul 2008 15:56:27 +0200
+
+biojava (1.5-1) UNRELEASED; urgency=low
+
+ * New upstream release.
+
+ -- Steffen Moeller <moeller at debian.org> Tue, 03 Jul 2007 01:51:06 +0200
Deleted: trunk/packages/biojava/tags/1:1.7.1-5/debian/control
===================================================================
--- trunk/packages/biojava/branches/1.7.1/debian/control 2014-05-20 12:21:32 UTC (rev 16964)
+++ trunk/packages/biojava/tags/1:1.7.1-5/debian/control 2014-05-20 13:14:45 UTC (rev 16967)
@@ -1,82 +0,0 @@
-Source: biojava-live
-Section: java
-Priority: optional
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Uploaders: Steffen Moeller <moeller at debian.org>,
- Andreas Tille <tille at debian.org>,
- Olivier Sallou <osallou at debian.org>
-Build-Depends-Indep: libcommons-dbcp-java (>= 1.1), libhsqldb-java,
- libcommons-collections3-java (>= 2.1), libcommons-pool-java (>= 1.1),
- libbytecode-java (>= 0.92.cvs.20070925),
- default-jdk, junit4,
- ant-optional
-Build-Depends: debhelper (>= 9), cdbs, ant
-Standards-Version: 3.9.5
-Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/biojava/trunk/
-Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/biojava/trunk/
-Homepage: http://www.biojava.org
-
-Package: libbiojava1.7-java
-Architecture: all
-Depends: ${shlibs:Depends}, ${misc:Depends},
- libcommons-pool-java (>= 1.1),
- libcommons-collections-java (>= 2.1),
- libcommons-dbcp-java (>= 1.1),
- libhsqldb-java,
- libbytecode-java
-Suggests: java-virtual-machine, libjgrapht-java, libbiojava-java, libbiojava-java-doc
-Conflicts: libbiojava1.6-java
-Replaces: libbiojava1.6-java
-Description: Java API to biological data and applications (version 1.7)
- This package presents the Open Source Java API to biological databases
- and a series of mostly sequence-based algorithms. The APIs are not
- compatible between versions. In analogy to the dealing with shared
- libraries of the C language, the jar file of this package has the
- API version in its name. It is symbolically linked to the expected
- biojava.jar filename in the package libbiojava-java. This will help
- keeping multiple versions of the biojava API in parallel.
-
-Package: libbiojava-java
-Architecture: all
-Depends: libbiojava1.7-java, ${misc:Depends}
-Conflicts: libbiojava1.6-java
-Replaces: libbiojava1.6-java
-Description: Java API to biological data and applications (default version)
- BioJava is an open-source project dedicated to providing a Java framework
- for processing biological data. It includes objects for manipulating
- sequences, file parsers, DAS client and server support, access to BioSQL
- and Ensembl databases, and powerful analysis and statistical routines
- including a dynamic programming toolkit.
- .
- BioJava is provided by a vibrant community which meets annually at
- the Bioinformatics Open Source Conference (BOSC) that traditionally
- accompanies the Intelligent Systems in Molecular Biology (ISMB)
- meeting. Much like BioPerl, the employment of this library is valuable
- for everybody active in the field because of the many tricks of the
- trade one learns just by communicating on the mailing list.
- .
- This is a wrapper package which should enable smooth upgrades to new
- versions.
-
-Package: libbiojava-java-demos
-Architecture: all
-Depends: ${misc:Depends}
-Recommends: libbiojava-java
-Description: Example programs for BioJava
- The package comes with a wealth of use cases for BioJava. It is generated
- together with the API documentation but because of its size of ~3.7MB it
- was decided to distribute it separately.
-
-
-Package: libbiojava-java-doc
-Section: doc
-Architecture: all
-Depends: ${misc:Depends}
-Recommends: konqueror|html-browser
-Suggests: libbiojava-java-demos, libbiojava-java
-Description: [Biology] Documentation for BioJava
- BioJava is an open-source project dedicated to providing a Java framework
- for processing biological data.
- .
- This package contains the HTML documentation describing the API of BioJava
- which was generated automatically by JavaDoc.
Copied: trunk/packages/biojava/tags/1:1.7.1-5/debian/control (from rev 16965, trunk/packages/biojava/branches/1.7.1/debian/control)
===================================================================
--- trunk/packages/biojava/tags/1:1.7.1-5/debian/control (rev 0)
+++ trunk/packages/biojava/tags/1:1.7.1-5/debian/control 2014-05-20 13:14:45 UTC (rev 16967)
@@ -0,0 +1,82 @@
+Source: biojava-live
+Section: java
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Steffen Moeller <moeller at debian.org>,
+ Andreas Tille <tille at debian.org>,
+ Olivier Sallou <osallou at debian.org>
+Build-Depends-Indep: libcommons-dbcp-java (>= 1.1), libhsqldb-java,
+ libcommons-collections3-java (>= 2.1), libcommons-pool-java (>= 1.1),
+ libbytecode-java (>= 0.92.cvs.20070925),
+ default-jdk, junit4,
+ ant-optional
+Build-Depends: debhelper (>= 9), cdbs, ant
+Standards-Version: 3.9.5
+Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/biojava/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/biojava/trunk/
+Homepage: http://www.biojava.org
+
+Package: libbiojava1.7-java
+Architecture: all
+Depends: ${shlibs:Depends}, ${misc:Depends},
+ libcommons-pool-java (>= 1.1),
+ libcommons-collections3-java,
+ libcommons-dbcp-java (>= 1.1),
+ libhsqldb-java,
+ libbytecode-java
+Suggests: java-virtual-machine, libjgrapht-java, libbiojava-java, libbiojava-java-doc
+Conflicts: libbiojava1.6-java
+Replaces: libbiojava1.6-java
+Description: Java API to biological data and applications (version 1.7)
+ This package presents the Open Source Java API to biological databases
+ and a series of mostly sequence-based algorithms. The APIs are not
+ compatible between versions. In analogy to the dealing with shared
+ libraries of the C language, the jar file of this package has the
+ API version in its name. It is symbolically linked to the expected
+ biojava.jar filename in the package libbiojava-java. This will help
+ keeping multiple versions of the biojava API in parallel.
+
+Package: libbiojava-java
+Architecture: all
+Depends: libbiojava1.7-java, ${misc:Depends}
+Conflicts: libbiojava1.6-java
+Replaces: libbiojava1.6-java
+Description: Java API to biological data and applications (default version)
+ BioJava is an open-source project dedicated to providing a Java framework
+ for processing biological data. It includes objects for manipulating
+ sequences, file parsers, DAS client and server support, access to BioSQL
+ and Ensembl databases, and powerful analysis and statistical routines
+ including a dynamic programming toolkit.
+ .
+ BioJava is provided by a vibrant community which meets annually at
+ the Bioinformatics Open Source Conference (BOSC) that traditionally
+ accompanies the Intelligent Systems in Molecular Biology (ISMB)
+ meeting. Much like BioPerl, the employment of this library is valuable
+ for everybody active in the field because of the many tricks of the
+ trade one learns just by communicating on the mailing list.
+ .
+ This is a wrapper package which should enable smooth upgrades to new
+ versions.
+
+Package: libbiojava-java-demos
+Architecture: all
+Depends: ${misc:Depends}
+Recommends: libbiojava-java
+Description: Example programs for BioJava
+ The package comes with a wealth of use cases for BioJava. It is generated
+ together with the API documentation but because of its size of ~3.7MB it
+ was decided to distribute it separately.
+
+
+Package: libbiojava-java-doc
+Section: doc
+Architecture: all
+Depends: ${misc:Depends}
+Recommends: konqueror|html-browser
+Suggests: libbiojava-java-demos, libbiojava-java
+Description: [Biology] Documentation for BioJava
+ BioJava is an open-source project dedicated to providing a Java framework
+ for processing biological data.
+ .
+ This package contains the HTML documentation describing the API of BioJava
+ which was generated automatically by JavaDoc.
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