[med-svn] r3161 - in trunk/packages: . biojava biojava/trunk biojava/trunk/debian biojava/trunk/debian/patches
tille at alioth.debian.org
tille at alioth.debian.org
Mon Mar 9 11:51:10 UTC 2009
Author: tille
Date: 2009-03-09 11:51:10 +0000 (Mon, 09 Mar 2009)
New Revision: 3161
Added:
trunk/packages/biojava/
trunk/packages/biojava/trunk/
trunk/packages/biojava/trunk/debian/
trunk/packages/biojava/trunk/debian/README.Debian
trunk/packages/biojava/trunk/debian/README.source
trunk/packages/biojava/trunk/debian/changelog
trunk/packages/biojava/trunk/debian/compat
trunk/packages/biojava/trunk/debian/control
trunk/packages/biojava/trunk/debian/copyright
trunk/packages/biojava/trunk/debian/libbiojava-java-doc.dirs
trunk/packages/biojava/trunk/debian/libbiojava-java-doc.doc-base
trunk/packages/biojava/trunk/debian/libbiojava-java-doc.links
trunk/packages/biojava/trunk/debian/libbiojava-java.docs
trunk/packages/biojava/trunk/debian/libbiojava1.6-java.dirs
trunk/packages/biojava/trunk/debian/patches/
trunk/packages/biojava/trunk/debian/patches/buildxml.patch
trunk/packages/biojava/trunk/debian/patches/series
trunk/packages/biojava/trunk/debian/rules
trunk/packages/biojava/trunk/debian/watch
Log:
Injecting BioJava into Debian Med repository
Added: trunk/packages/biojava/trunk/debian/README.Debian
===================================================================
--- trunk/packages/biojava/trunk/debian/README.Debian (rev 0)
+++ trunk/packages/biojava/trunk/debian/README.Debian 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1,19 @@
+biojava for Debian
+------------------
+
+All the developers of BioJava are thanked for their fine work. Special
+thanks go to Colin Hardman, Andreas Prlic and Simon Brocklehurst for
+reacting to my request to get a missing license information into one
+of their style sheets.
+
+The package is not completely functional because of a dependency of
+a very small fraction of code that is of little practical relevance to
+the vast majority of BioJava users. This dependes on jgrapht libraries
+of version 1.5 that are not in Debian.
+
+The packages are now all compiled with the OpenJDK, which now qualifies
+them for main. However, libjgrapht in the version currently in sid is
+still in contrib. This will be changed. But for now, biojava has to go to the
+contrib directory, too, for exactly this reason.
+
+ -- Steffen Moeller <moeller at debian.org> Tue, 30 Dec 2008 01:12:41 +0100
Added: trunk/packages/biojava/trunk/debian/README.source
===================================================================
--- trunk/packages/biojava/trunk/debian/README.source (rev 0)
+++ trunk/packages/biojava/trunk/debian/README.source 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1,36 @@
+biojava for Debian
+------------------
+
+The following jars from the upstream source distribution were
+substituted by Debian packages:
+
+ bytecode.jar
+ commons-cli.jar
+ commons-collections-2.1.jar
+ commons-dbcp-1.1.jar
+ commons-pool-1.1.jar
+ jgrapht-jdk1.5.jar
+ junit-4.4.jar
+
+These libraries are very common (well, this probably is why they are
+named this way) and hence changes in their API very likely to effect many
+programs. Nevertheless, without a proper management of Java archives
+in Debian, i.e., by raven/maven, it is somewhat conflict-prone to use
+other Jars than the ones deployed with upstream sources.
+
+Exceptions is bytecode.jar which is developed by the BioJava community
+and is hence always strongly coupled to this package. The jgrapht library
+underwent a recent change in its API and is hence incompatible with
+the latest release.
+
+The documentation was separated from the jar file and so was the huge
+demos folder with code examples.
+
+If indicated as such by the string "svn" in the version string, the
+sources were taken directly from the upstream subversion repository
+as svn co svn://code.open-bio.org/biojava/biojava-live/trunk biojava-live
+
+Help to improve the packaging is appreciated. You may find more packages
+of your interest at http://pkg-escience.alioth.debian.org.
+
+ -- Steffen Moeller <moeller at debian.org> Tue, 03 Jul 2007 01:51:06 +0200
Added: trunk/packages/biojava/trunk/debian/changelog
===================================================================
--- trunk/packages/biojava/trunk/debian/changelog (rev 0)
+++ trunk/packages/biojava/trunk/debian/changelog 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1,25 @@
+biojava-live (1.6.1.svn.20090306-1) experimental; urgency=low
+
+ * Initial release (Closes:#491025).
+ * 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.
+
+ -- Steffen Moeller <moeller at debian.org> Tue, 30 Dec 2008 19:55:36 +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
Added: trunk/packages/biojava/trunk/debian/compat
===================================================================
--- trunk/packages/biojava/trunk/debian/compat (rev 0)
+++ trunk/packages/biojava/trunk/debian/compat 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1 @@
+4
Added: trunk/packages/biojava/trunk/debian/control
===================================================================
--- trunk/packages/biojava/trunk/debian/control (rev 0)
+++ trunk/packages/biojava/trunk/debian/control 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1,67 @@
+Source: biojava-live
+Section: contrib/science
+Priority: optional
+Maintainer: Steffen Moeller <moeller at debian.org>
+Build-Depends-Indep: libcommons-cli-java, libcommons-dbcp-java (>= 1.1), libhsqldb-java,
+ libcommons-collections-java (>= 2.1), libcommons-pool-java (>= 1.1),
+ libbytecode-java (>= 0.92.cvs.20070925),
+ openjdk-6-jdk|sun-java6-jdk|sun-java5-jdk|sun-j2sdk1.4|java2-compiler, ant, junit4,
+ libjgrapht0.7-java|libjgrapht-java (>=0.7)
+Build-Depends: debhelper, quilt
+Standards-Version: 3.8.0
+Vcs-Browser: http://svn.debian.org/wsvn/pkg-escience/biojava/trunk
+Vcs-Svn: svn://svn.debian.org/svn/pkg-escience/biojava
+Homepage: http://www.biojava.org
+
+Package: libbiojava1.6-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, openjdk-6-jre|sun-java6-jre|sun-java5-jre|java2-runtime
+Suggests: java-virtual-machine, libjgrapht-java, libbiojava-java, libbiojava-java-doc
+Description: Java API to biological data and applications
+ 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: libbiojava1.6-java
+Description: Java API to biological data and applications
+ 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.
+ .
+ If using BioJava, please cite: R.C.G. Holland, T. Down, M. Pocock,
+ A. Prlić, D. Huen, K. James, S. Foisy, A. Dräger, A. Yates,
+ M. Heuer; M.J. Schreiber (2008) "BioJava: an Open-Source Framework
+ for Bioinformatics" Bioinformatics 24(18):2096-2097.
+
+
+Package: libbiojava-java-demos
+Architecture: all
+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: contrib/doc
+Architecture: all
+Recommends: konqueror|html-browser
+Suggests: libbiojava-java-demos, libbiojava-java
+Description: [Biology] Documentation for BioJava
+ JavaDoc generated HTML files describing the API.
Added: trunk/packages/biojava/trunk/debian/copyright
===================================================================
--- trunk/packages/biojava/trunk/debian/copyright (rev 0)
+++ trunk/packages/biojava/trunk/debian/copyright 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1,76 @@
+This package was debianized by Steffen Moeller <moeller at debian.org> on
+Wed, 31 Dec 2008 01:26:45 +0100
+
+It was downloaded from http://www.biojava.org/download/source
+
+Copyright: 1999-2008 the Individual authors who contributed the code,
+ as identified by the @authors tag of the respective source file.
+
+Upstream Authors: BioJava Developers <biojava-l at biojava.org>
+ Namely: Alan Li, Andreas Dräger <andreas.draeger at uni-tuebingen.de>, Andreas Prlic,
+ Andy Hammer, Andy Yates, Andy Yates, Aroul Ramadass, Bradford Powell,
+ Brian Gilman, Brian King, Bubba Puryear, Colin Hardman , David Allen,
+ David H. Klatte, David Huen, David Scott, David Waring, Eric Haugen,
+ Ewan Birney, Francois Pepin, Frans Verhoef, Frederik Decouttere, Gerald
+ Loeffler <Gerald.Loeffler at vienna.at>, Greg Cox, G. Waldon, Hanning
+ Ni ,, Horvath Tamas, Jason Stajich, Jim Balhoff, John Day Richter,
+ Jolyon Holdstock, Jonathan Warren, Jules Jacobsen, Kalle Naslund,
+ Keith James <kdj at sanger.ac.uk>, Lachlan Coin, Laurent Jourdren, Leen
+ Ammeraal, Lei Lai, Len Trigg, Lorna Morris, Lukas Kall, Mark Schreiber
+ <mark.schreiber at agresearch.co.nz>, Mark Southern, Markus Brosch, Martin
+ Senger <senger at ebi.ac.uk>, Martin Szugat <Martin.Szugat at GMX.net>, Mathew
+ Pocock, Mathieu Wiepert , Matthew Pocock, Mayo Foundation, Michael Heuer,
+ Michael Jones, Michael L Heurer, Mike Jones, Moses Hohman, Nimesh Singh,
+ Paul Seed, Peter Lackner, raemig, Rahul Karnik, Rhett Sutphin, Richard
+ Holland, Ronald Tschalar, Ron Kuhn, Russell Smithies, Samiul Hasan,
+ Shuvankar Mukherjee, Simon Brocklehurst, Simon Foote, Stuart Johnston ,
+ Susanne Merz, Tamas Horvath, Tanya Vavouri, Thad Welch, Thomas Down,
+ Tim Dilks , Tobias Thierer, Todd Riley
+
+
+License:
+
+ BioJava is an open source project. The project is distributed under the GNU
+ Lesser General Public Licence. We do not consider Java class loading to
+ constitute the production of a derivative work. We do not consider consider
+ sub-classing of Java classes or implementations of Java interfaces to constitute
+ the production of a derivative work.
+
+ All .java source files should include the following comment which implies the
+ author's agreement to the tearms of the license.
+
+ /*
+ * BioJava development code
+ *
+ * This code may be freely distributed and modified under the
+ * terms of the GNU Lesser General Public Licence. This should
+ * be distributed with the code. If you do not have a copy,
+ * see:
+ *
+ * http://www.gnu.org/copyleft/lesser.html
+ *
+ * Copyright for this code is held jointly by the individual
+ * authors. These should be listed in @author doc comments.
+ *
+ * For more information on the BioJava project and its aims,
+ * or to join the biojava-l mailing list, visit the home page
+ * at:
+ *
+ * http://www.biojava.org/
+ *
+ */
+
+ This package 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 package; if not, write to the Free Software
+ Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA
+
+On Debian systems, the complete text of the GNU Lesser General
+Public License can be found in `/usr/share/common-licenses/LGPL'.
+
+The Debian packaging is (C) 2007-2008, Steffen Moeller <moeller at debian.org>
+and is licensed under the LGPL, see `/usr/share/common-licenses/LGPL'.
Added: trunk/packages/biojava/trunk/debian/libbiojava-java-doc.dirs
===================================================================
--- trunk/packages/biojava/trunk/debian/libbiojava-java-doc.dirs (rev 0)
+++ trunk/packages/biojava/trunk/debian/libbiojava-java-doc.dirs 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1 @@
+usr/share/doc/libbiojava-java
Added: trunk/packages/biojava/trunk/debian/libbiojava-java-doc.doc-base
===================================================================
--- trunk/packages/biojava/trunk/debian/libbiojava-java-doc.doc-base (rev 0)
+++ trunk/packages/biojava/trunk/debian/libbiojava-java-doc.doc-base 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1,26 @@
+Document: biojava
+Title: biojava API
+Author: BioJava developers
+Abstract: Javadoc-generated API for the BioJava library.
+ 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.
+ .
+ If using BioJava, please cite: R.C.G. Holland, T. Down, M. Pocock,
+ A. Prlić, D. Huen, K. James, S. Foisy, A. Dräger, A. Yates,
+ M. Heuer; M.J. Schreiber (2008) "BioJava: an Open-Source Framework
+ for Bioinformatics" Bioinformatics 24(18):2096-2097.
+Section: Science/Biology
+
+Format: HTML
+Index: /usr/share/doc/libbiojava-java/api/index.html
+Files: /usr/share/doc/libbiojava-java/api/*.html /usr/share/doc/libbiojava-java/api/*/*/*.html /usr/share/doc/libbiojava-java/api/*/*/*/*.html /usr/share/doc/libbiojava-java/api/*/*/*/*/*.html /usr/share/doc/libbiojava-java/api/*/*/*/*/*/*.html /usr/share/doc/libbiojava-java-doc/api/*/*/*/*/*/*/*.html /usr/share/doc/libbiojava-java/api/*/*/*/*/*/*/*/*.html
Added: trunk/packages/biojava/trunk/debian/libbiojava-java-doc.links
===================================================================
--- trunk/packages/biojava/trunk/debian/libbiojava-java-doc.links (rev 0)
+++ trunk/packages/biojava/trunk/debian/libbiojava-java-doc.links 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1 @@
+usr/share/doc/libbiojava-java/api usr/share/doc/libbiojava-java-doc/api
Added: trunk/packages/biojava/trunk/debian/libbiojava-java.docs
===================================================================
--- trunk/packages/biojava/trunk/debian/libbiojava-java.docs (rev 0)
+++ trunk/packages/biojava/trunk/debian/libbiojava-java.docs 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1,4 @@
+README
+README.biosql
+resources
+dtd
Added: trunk/packages/biojava/trunk/debian/libbiojava1.6-java.dirs
===================================================================
--- trunk/packages/biojava/trunk/debian/libbiojava1.6-java.dirs (rev 0)
+++ trunk/packages/biojava/trunk/debian/libbiojava1.6-java.dirs 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1 @@
+usr/share/java
Added: trunk/packages/biojava/trunk/debian/patches/buildxml.patch
===================================================================
--- trunk/packages/biojava/trunk/debian/patches/buildxml.patch (rev 0)
+++ trunk/packages/biojava/trunk/debian/patches/buildxml.patch 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1,65 @@
+--- biojava-live-1.6.svn.20080713.orig/build.xml
++++ biojava-live-1.6.svn.20080713/build.xml
+@@ -51,7 +51,7 @@
+ <tstamp />
+ <property name="version" value="live" />
+ <property name="build.compiler" value="javac1.5" />
+- <property name="classpath" value="bytecode.jar:commons-cli.jar:commons-collections-2.1.jar:commons-dbcp-1.1.jar:commons-pool-1.1.jar:hsqldb.jar:jgrapht-jdk1.5.jar:junit-4.4.jar" />
++ <property name="classpath" value="/usr/share/java/bytecode.jar:/usr/share/java/commons-cli.jar:/usr/share/java/commons-collections.jar:/usr/share/java/commons-dbcp.jar:/usr/share/java/commons-pool.jar:/usr/share/java/hsqldb.jar:/usr/share/java/jgrapht-0.7.jar:/usr/share/java/junit4.jar" />
+ <property name="ant-tasks.path" value="ant-lib/sablecc.jar:ant-lib/anttask.jar" />
+
+
+@@ -401,7 +401,7 @@
+ source="1.5"
+ windowtitle="${Name.biojava}-${version} API"
+ doctitle="${Name.biojava}-${version}"
+- maxmemory="96m">
++ maxmemory="512m">
+ <link href="http://java.sun.com/j2se/1.5.0/docs/api/" offline="false"/>
+
+ <group title="Core biological packages"
+@@ -464,7 +464,7 @@
+ source="1.5"
+ windowtitle="${Name.demos} API"
+ doctitle="${Name.demos}"
+- maxmemory="96m">
++ maxmemory="512m">
+ <link href="http://java.sun.com/j2se/1.5.0/docs/api/" offline="false"/>
+ <link href="../biojava" offline="true" packagelistLoc="${build.docs.biojava}/package-list}"/>
+ </javadoc>
+@@ -485,7 +485,7 @@
+ source="1.5"
+ windowtitle="${Name.apps} API"
+ doctitle="${Name.apps}"
+- maxmemory="96m">
++ maxmemory="512m">
+ <link href="http://java.sun.com/j2se/1.5.0/docs/api/" offline="false"/>
+ <link href="../biojava" offline="true" packagelistLoc="${build.docs.biojava}/package-list}"/>
+
+@@ -507,7 +507,7 @@
+ description="Run all tests, can be quite slow">
+ <property name="test.subtree" value="**" />
+ <echo message="Running tests: ${test.subtree}" />
+- <junit maxmemory="128m" printsummary="yes" haltonfailure="no" reloading="no">
++ <junit maxmemory="512m" printsummary="yes" haltonfailure="no" reloading="no">
+ <formatter type="plain" usefile="true" />
+ <classpath>
+ <!-- main classes from build -->
+@@ -547,7 +547,7 @@
+ classpath="${classpath}"
+ destdir="${build.doccheck.biojava}"
+ source="1.5"
+- maxmemory="96m">
++ maxmemory="512m">
+ </javadoc>
+ </target>
+
+@@ -558,7 +558,7 @@
+ description="Run clean, build and tests for CruiseControl">
+ <property name="test.subtree" value="**" />
+ <echo message="Running tests: ${test.subtree}" />
+- <junit maxmemory="128m"
++ <junit maxmemory="512m"
+ printsummary="yes"
+ haltonfailure="no"
+ reloading="no"
Added: trunk/packages/biojava/trunk/debian/patches/series
===================================================================
--- trunk/packages/biojava/trunk/debian/patches/series (rev 0)
+++ trunk/packages/biojava/trunk/debian/patches/series 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1 @@
+buildxml.patch
Added: trunk/packages/biojava/trunk/debian/rules
===================================================================
--- trunk/packages/biojava/trunk/debian/rules (rev 0)
+++ trunk/packages/biojava/trunk/debian/rules 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1,83 @@
+#!/usr/bin/make -f
+# -*- makefile -*-
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+include /usr/share/quilt/quilt.make
+
+build: patch build-stamp
+
+build-stamp:
+ dh_testdir
+ find . -name "*.java" -o -name ReadMe -o -name "*.fa" -o -name "*.html" | xargs -r chmod 644
+ # Add here commands to compile the package.
+ ANT_OPTS="-Xms1024m -Xmx1024m" ant package-biojava
+ #ant compile-demos
+ ant javadocs-biojava
+
+ touch build-stamp
+
+clean: unpatch
+ dh_testdir
+ dh_testroot
+ rm -f build-stamp
+
+ # Add here commands to clean up after the build process.
+ ant clean
+
+ dh_clean
+
+install: build
+ dh_testdir
+ dh_testroot
+ dh_clean -k
+ dh_installdirs
+
+ cp ant-build/biojava.jar $(CURDIR)/debian/libbiojava1.6-java/usr/share/java/biojava$(DEB_UPSTREAM_VERSION).jar
+ d=$(CURDIR)/debian/libbiojava-java-doc/usr/share/doc/libbiojava-java/api; \
+ [ -d $$d ] || mkdir -p $$d ; \
+ cp -r ant-build/docs/biojava/* $$d
+ for i in $(CURDIR)/debian/libbiojava-java*; do \
+ if [ -d "$i" ]; then \
+ find $i -name ".svn" | xargs -r rm -r ; \
+ fi ; \
+ done
+
+ ant runtests
+
+
+binary-arch:
+# We have nothing to do by default.
+
+binary-indep: build install
+ dh_testdir
+ dh_testroot
+ dh_installchangelogs
+ dh_installdocs
+ dh_installexamples -plibbiojava-java-demos demos/*
+ #dh_installman
+ dh_link -p libbiojava-java /usr/share/java/biojava$(DEB_UPSTREAM_VERSION).jar /usr/share/java/biojava.jar
+ dh_link -p libbiojava1.6-java /usr/share/java/biojava$(DEB_UPSTREAM_VERSION).jar /usr/share/java/biojava1.6.jar
+ dh_link # use <pkg>.link files for version independant linking
+ dh_compress
+ dh_fixperms
+ dh_installdeb
+ dh_gencontrol
+ dh_md5sums
+ dh_builddeb
+
+binary: binary-indep binary-arch
+
+get-orig-source:
+ version=1.6.1.svn.`date +"%Y%m%d"|tr -d '\n'` ; \
+ targetdir=biojava-live-$$version ; \
+ origtargz=biojava-live_$$version.orig.tar.gz ; \
+ cd .. ; \
+ svn co svn://code.open-bio.org/biojava/biojava-live/trunk $$targetdir ; \
+ find $$targetdir -name ".svn" | xargs -r rm -r ; \
+ find $$targetdir -name "*.jar" | xargs -r rm ; \
+ tar czf $$origtargz $$targetdir ; \
+ rm -rf $$targetdir
+
+.PHONY: build clean binary-indep binary-arch binary install configure get-orig-source
Property changes on: trunk/packages/biojava/trunk/debian/rules
___________________________________________________________________
Name: svn:executable
+ *
Added: trunk/packages/biojava/trunk/debian/watch
===================================================================
--- trunk/packages/biojava/trunk/debian/watch (rev 0)
+++ trunk/packages/biojava/trunk/debian/watch 2009-03-09 11:51:10 UTC (rev 3161)
@@ -0,0 +1,5 @@
+version=3
+# Well, this only finds updates to version 1.5
+http://www.biojava.org/download/bj15/src/BioJava(.*)-src.tar.gz
+# offers no source
+#http://www.biojava.org/download/bj16/src/biojava-1.6.1-all.jar
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