[med-svn] r1568 - in trunk/packages: . biojava biojava/trunk biojava/trunk/debian
tille at alioth.debian.org
tille at alioth.debian.org
Thu Mar 13 08:32:14 UTC 2008
Author: tille
Date: 2008-03-13 08:32:13 +0000 (Thu, 13 Mar 2008)
New Revision: 1568
Added:
trunk/packages/biojava/
trunk/packages/biojava/trunk/
trunk/packages/biojava/trunk/README
trunk/packages/biojava/trunk/debian/
trunk/packages/biojava/trunk/debian/README.Debian
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/dirs
trunk/packages/biojava/trunk/debian/docs
trunk/packages/biojava/trunk/debian/libbiojava-doc.dirs
trunk/packages/biojava/trunk/debian/rules
trunk/packages/biojava/trunk/debian/watch
Log:
Moved Steffen M?\195?\182llers work which was stalled to svn to keep track of previous work.
Added: trunk/packages/biojava/trunk/README
===================================================================
--- trunk/packages/biojava/trunk/README (rev 0)
+++ trunk/packages/biojava/trunk/README 2008-03-13 08:32:13 UTC (rev 1568)
@@ -0,0 +1,3 @@
+Work on this project was started by Steffen Möller but has stalled.
+Feel free to take it over.
+
Added: trunk/packages/biojava/trunk/debian/README.Debian
===================================================================
--- trunk/packages/biojava/trunk/debian/README.Debian (rev 0)
+++ trunk/packages/biojava/trunk/debian/README.Debian 2008-03-13 08:32:13 UTC (rev 1568)
@@ -0,0 +1,9 @@
+biojava for Debian
+------------------
+
+Not all jars from the upstream source distribution could yet be
+substituted by Debian packages.
+
+Help is appreciated.
+
+ -- Steffen Moeller <moeller at pzr.uni-rostock.de>, Sun, 23 Jan 2005 22:58:24 +0100
Added: trunk/packages/biojava/trunk/debian/changelog
===================================================================
--- trunk/packages/biojava/trunk/debian/changelog (rev 0)
+++ trunk/packages/biojava/trunk/debian/changelog 2008-03-13 08:32:13 UTC (rev 1568)
@@ -0,0 +1,6 @@
+biojava (1.4pre1-1) unstable; urgency=low
+
+ * Initial Release.
+
+ -- Steffen Moeller <moeller at pzr.uni-rostock.de> Sun, 23 Jan 2005 22:58:24 +0100
+
Added: trunk/packages/biojava/trunk/debian/compat
===================================================================
--- trunk/packages/biojava/trunk/debian/compat (rev 0)
+++ trunk/packages/biojava/trunk/debian/compat 2008-03-13 08:32:13 UTC (rev 1568)
@@ -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 2008-03-13 08:32:13 UTC (rev 1568)
@@ -0,0 +1,25 @@
+Source: biojava
+Section: science
+Priority: optional
+Maintainer: Steffen Moeller <moeller at pzr.uni-rostock.de>
+Build-Depends: debhelper (>= 4.0.0),sun-j2sdk1.4|java2-compiler, ant
+Standards-Version: 3.6.1.1
+
+Package: libbiojava-java
+Architecture: all
+Depends: ${shlibs:Depends},${misc:Depends},sun-j2sdk1.4|java2-runtime
+Recommends: sun-j2sdk1.4|java-virtual-machine
+Description: [Biology] BioJava facilitates the processing of biological data
+ BioJava is an open-source project dedicated to providing a Java framework
+ for processing biological data. It include 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.
+ .
+ Homepage: www.biojava.org
+
+Package: libbiojava-doc
+Architecture: all
+Recommends: konqueror|html-browser
+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 2008-03-13 08:32:13 UTC (rev 1568)
@@ -0,0 +1,59 @@
+This package was debianized by Steffen Möller <moeller at pzr.uni-rostock.de> on
+Sun, 23 Jan 2005 22:58:24 +0100.
+
+It was downloaded from http://www.biojava.org
+
+Copyright:
+
+Upstream Author: BioJava Developers <biojava-l at biojava.org>
+
+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 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 2 of the License, or (at your option) any later version.
+
+ 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., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
+
+On Debian systems, the complete text of the GNU Lesser General
+Public License can be found in `/usr/share/common-licenses/LGPL'.
+
+
Added: trunk/packages/biojava/trunk/debian/dirs
===================================================================
--- trunk/packages/biojava/trunk/debian/dirs (rev 0)
+++ trunk/packages/biojava/trunk/debian/dirs 2008-03-13 08:32:13 UTC (rev 1568)
@@ -0,0 +1 @@
+usr/share/java
Added: trunk/packages/biojava/trunk/debian/docs
===================================================================
--- trunk/packages/biojava/trunk/debian/docs (rev 0)
+++ trunk/packages/biojava/trunk/debian/docs 2008-03-13 08:32:13 UTC (rev 1568)
@@ -0,0 +1 @@
+README
Added: trunk/packages/biojava/trunk/debian/libbiojava-doc.dirs
===================================================================
--- trunk/packages/biojava/trunk/debian/libbiojava-doc.dirs (rev 0)
+++ trunk/packages/biojava/trunk/debian/libbiojava-doc.dirs 2008-03-13 08:32:13 UTC (rev 1568)
@@ -0,0 +1 @@
+usr/share/doc/libbiojava-java
Added: trunk/packages/biojava/trunk/debian/rules
===================================================================
--- trunk/packages/biojava/trunk/debian/rules (rev 0)
+++ trunk/packages/biojava/trunk/debian/rules 2008-03-13 08:32:13 UTC (rev 1568)
@@ -0,0 +1,66 @@
+#!/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.
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+
+build: build-stamp
+
+build-stamp:
+ dh_testdir
+
+ # Add here commands to compile the package.
+ ant package-biojava
+ #ant compile-demos
+ ant javadocs-biojava
+
+ touch build-stamp
+
+clean:
+ 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/{commons-cli,biojava,bytecode,htmlparser}.jar $(CURDIR)/debian/libbiojava-java/usr/share/java/
+ cp -r ant-build/docs/biojava $(CURDIR)/debian/libbiojava-doc/usr/share/doc/libbiojava-java/api
+
+
+# Build architecture-independent files here.
+binary-indep: build install
+# We have nothing to do by default.
+
+# Build architecture-dependent files here.
+binary-arch: build install
+ dh_testdir
+ dh_testroot
+ dh_installchangelogs
+ dh_installdocs
+ dh_installexamples
+ dh_installman
+ dh_compress
+ dh_fixperms
+ dh_installdeb
+ dh_shlibdeps
+ dh_gencontrol
+ dh_md5sums
+ dh_builddeb
+
+binary: binary-indep binary-arch
+.PHONY: build clean binary-indep binary-arch binary install configure
Added: trunk/packages/biojava/trunk/debian/watch
===================================================================
--- trunk/packages/biojava/trunk/debian/watch (rev 0)
+++ trunk/packages/biojava/trunk/debian/watch 2008-03-13 08:32:13 UTC (rev 1568)
@@ -0,0 +1,6 @@
+# Example watch control file for uscan
+# Rename this file to "watch" and then you can run the "uscan" command
+# to check for upstream updates and more.
+# Site Directory Pattern Version Script
+version=2
+http://www.biojava.org/download/source/biojava-(.*)\.tar\.gz debian uupdate
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