debian/0000755000000000000000000000000011650477703007200 5ustar debian/rules0000755000000000000000000000041211650477650010256 0ustar #!/usr/bin/make -f export JAVA_HOME=/usr/lib/jvm/default-java export CLASSPATH=/usr/share/java/log4j-1.2.jar %: dh $@ --with javahelper override_dh_auto_clean: rm -Rf src override_dh_auto_build: override_jh_build: mkdir -p src; cp -af compbio src/ jh_builddebian/control0000644000000000000000000000127511552370525010603 0ustar Source: libjaba-client-java Section: java Priority: optional Maintainer: Vincent Fourmond Build-Depends: debhelper (>= 7.0.50~), javahelper, default-jdk, liblog4j1.2-java Standards-Version: 3.9.2 Homepage: http://www.compbio.dundee.ac.uk/jabaws/ Vcs-Svn: svn://svn.debian.org/svn/pkg-java/trunk/libjaba-client-java Vcs-Browser: http://svn.debian.org/viewsvn/pkg-java/trunk/libjaba-client-java Package: libjaba-client-java Architecture: all Depends: ${misc:Depends}, ${java:Depends} Description: minimal client for the JABAWS server This package contains a library for building a client for the JABAWS sequence alignment server. . This library is needed by jalview. debian/patches/0000755000000000000000000000000011650477653010633 5ustar debian/patches/strip-annotations.diff0000644000000000000000000000132511650465567015163 0ustar Index: libjaba-client-java-0+dfsg/compbio/metadata/RunnerConfig.java =================================================================== --- libjaba-client-java-0+dfsg.orig/compbio/metadata/RunnerConfig.java 2010-11-18 15:37:12.000000000 +0100 +++ libjaba-client-java-0+dfsg/compbio/metadata/RunnerConfig.java 2011-10-22 09:06:15.465134107 +0200 @@ -28,7 +28,6 @@ import javax.xml.bind.annotation.XmlTransient; import compbio.util.SysPrefs; -import compbio.util.annotation.NotThreadSafe; /** * The list of {@link Parameter}s and {@link Option}s supported by executable. @@ -41,7 +40,6 @@ * type of an Executable */ @XmlRootElement -@NotThreadSafe public class RunnerConfig { /* debian/patches/series0000644000000000000000000000002711650465506012041 0ustar strip-annotations.diff debian/copyright0000644000000000000000000000343411647621151011131 0ustar Format: http://svn.debian.org/wsvn/dep/web/deps/dep5.mdwn?op=file&rev=174 Upstream-Name: JABAWS command-line client Source: http://www.compbio.dundee.ac.uk/jabaws/download.html The "source" jar file actually found on that page is missing a few bits, which were kindly provided privately by Peter Troshin. This situation should improve soon enough. Files: * Copyright: 2009, 2010 by Peter Troshin License: Apache 2.0 Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at . http://www.apache.org/licenses/LICENSE-2.0 . Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License. . On Debian system, the full text of the license can be found at /usr/share/common-licenses/Apache-2.0 Files: compbio/util/annotation/*ThreadSafe.java Copyright: 2005 Brian Goetz and Tim Peierls License: CC-BY Released under the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.5) . Any republication or derived work distributed in source code form must include this copyright and license notice. Files: debian/* Copyright: 2011 by Vincent Fourmond License: Apache 2.0 The debian packaging is licensed under the Apache 2.0 license, like most of the original code. debian/libjaba-client-java.dirs0000644000000000000000000000001511552370525013631 0ustar usr/share/docdebian/changelog0000644000000000000000000000070211650465631011046 0ustar libjaba-client-java (0+dfsg-1) unstable; urgency=low * Strip the *ThreadSafe class files from the source code, they are hardly used anyway. * strip-annotations.diff: to remove the only use of those -- Vincent Fourmond Sat, 22 Oct 2011 09:06:48 +0200 libjaba-client-java (0-1) unstable; urgency=low * Initial release. (Closes: #623030) -- Vincent Fourmond Thu, 14 Apr 2011 22:03:33 +0200 debian/compat0000644000000000000000000000000211552370525010371 0ustar 7 debian/libjaba-client-java.jlibs0000644000000000000000000000002411552370632013772 0ustar min-jaba-client.jar debian/javabuild0000644000000000000000000000003011650477310011047 0ustar min-jaba-client.jar src debian/source/0000755000000000000000000000000011650477653010504 5ustar debian/source/format0000644000000000000000000000001411552370525011701 0ustar 3.0 (quilt)