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build.xml
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build.xml
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<?xml version="1.0"?>
<project name="PathVisio" default="exe" basedir=".">
<property name="src.dir" value="modules"/>
<property name="debug.mode" value="true"/>
<property name="apidoc.dir" value="apidoc"/>
<property name="webstart.dir" value="webstart"/>
<property name="release.dir" value="release"/>
<property name="svn.exec.svnversion" value="svnversion"/>
<property name="checkstyle.output.file" value="warnings.txt"/>
<property name="webstart.base.url" value="http://www.pathvisio.org/webstart"/>
<!-- needed to build zip files correctly -->
<property name="pathvisio.version" value="3.4.0"/>
<macrodef name="iterate">
<attribute name="target"/>
<sequential>
<subant target="@{target}">
<filelist dir=".">
<file name="modules/org.pathvisio.core/build.xml"/>
<file name="modules/org.pathvisio.gui/build.xml"/>
<file name="modules/org.pathvisio.data/build.xml"/>
<file name="modules/org.pathvisio.desktop/build.xml"/>
<file name="modules/org.pathvisio.pluginmanager/build.xml"/>
<file name="modules/org.pathvisio.launcher/build.xml"/>
<file name="modules/org.pathvisio.gex/build.xml"/>
<file name="modules/org.pathvisio.statistics/build.xml"/>
<file name="modules/org.pathvisio.visualization/build.xml"/>
</filelist>
</subant>
</sequential>
</macrodef>
<target name="prepare">
<mkdir dir="${apidoc.dir}"/>
<mkdir dir="${release.dir}" />
</target>
<target name="clean" description="Remove all intermediate files.">
<delete dir="${apidoc.dir}"/>
<delete dir="${webstart.dir}/www"/>
<delete dir="build"/>
<iterate target="clean"/>
</target>
<target name="dist-clean" depends="clean" description="Cleaner than clean: remove all generated files">
<delete file="${src.dir}/org.pathvisio.core/src/org/pathvisio/core/Revision.java"/>
<delete file="pathvisio.jar"/>
<delete dir="${release.dir}" />
<iterate target="dist-clean"/>
</target>
<target name="core.jar" depends="prepare">
<subant target="jar" buildpath="modules/org.pathvisio.core/build.xml"/>
</target>
<target name="data.jar" depends="prepare">
<subant target="jar" buildpath="modules/org.pathvisio.data/build.xml"/>
</target>
<target name="gui.jar" depends="core.jar">
<subant target="jar" buildpath="modules/org.pathvisio.gui/build.xml"/>
</target>
<target name="desktop.jar" depends="gui.jar, data.jar">
<subant target="jar" buildpath="modules/org.pathvisio.desktop/build.xml"/>
</target>
<target name="pluginmanager.jar" depends="desktop.jar">
<subant target="jar" buildpath="modules/org.pathvisio.pluginmanager/build.xml"/>
</target>
<target name="launcher.jar" depends="core.jar">
<subant target="jar" buildpath="modules/org.pathvisio.launcher/build.xml"/>
</target>
<target name="visualization.jar" depends="desktop.jar">
<subant target="jar" buildpath="modules/org.pathvisio.visualization/build.xml"/>
</target>
<target name="plugin-dev" depends="plugins.jar">
<mkdir dir="plugin-dev"/>
<copy toDir="plugin-dev">
<fileset dir="lib">
<include name="*.jar"/>
</fileset>
<fileset dir="modules">
<include name="*.jar"/>
</fileset>
</copy>
</target>
<target name="plugins.jar" depends="visualization.jar,pluginmanager.jar">
<subant target="jar" buildpath="modules/org.pathvisio.gex/build.xml"/>
<subant target="jar" buildpath="modules/org.pathvisio.statistics/build.xml"/>
</target>
<target name="exe" depends="launcher.jar,plugins.jar">
<mkdir dir="build/exe"/>
<copy toDir="build/exe">
<fileset dir="modules">
<include name="org.pathvisio.core.jar"/>
<include name="org.pathvisio.data.jar"/>
<include name="org.pathvisio.pluginmanager.jar"/>
<include name="org.pathvisio.gui.jar"/>
<include name="org.pathvisio.desktop.jar"/>
<include name="org.pathvisio.statistics.jar"/>
<include name="org.pathvisio.visualization.jar"/>
<include name="org.pathvisio.gexplugin.jar"/>
</fileset>
<fileset dir="lib">
<include name="org.apache*.jar"/>
<include name="org.w3c*.jar"/>
<include name="derby.jar"/>
<include name="org.bridgedb*.jar"/>
<include name="org.pathvisio.*.jar"/>
<include name="javax.*.jar"/>
<include name="commons-math*.jar"/>
<include name="com.springsource*.jar"/>
<include name="org.apache.felix.bundlerepository-1.6.6.jar"/>
</fileset>
</copy>
<unjar src="modules/org.pathvisio.launcher.jar" dest="build/exe"/>
<unjar src="lib/felix.jar" dest="build/exe"/>
<jar file="pathvisio.jar" basedir="build/exe">
<manifest>
<attribute name="Main-Class" value="org.pathvisio.launcher.PathVisioMain"/>
<attribute name="Permissions" value="all-permissions"/>
<attribute name="Codebase" value="www.pathvisio.org"/>
<attribute name="Application-Name" value="PathVisio"/>
</manifest>
</jar>
</target>
<target name="all" depends="exe" description="Compile all versions of this project" />
<target name="docs" depends="prepare" description="generate api-docs">
<tstamp /> <!-- set ${TODAY} -->
<javadoc destdir="${apidoc.dir}"
doctitle="PathVisio"
header="Version ${pathvisio.version}"
footer="Generated ${TODAY}">
<classpath>
<fileset dir="lib">
<include name="*.jar"/>
</fileset>
</classpath>
<packageset dir="${src.dir}/org.pathvisio.core/src"/>
<packageset dir="${src.dir}/org.pathvisio.data/src"/>
<packageset dir="${src.dir}/org.pathvisio.pluginmanager/src"/>
<packageset dir="${src.dir}/org.pathvisio.gui/src"/>
<packageset dir="${src.dir}/org.pathvisio.desktop/src"/>
<packageset dir="${src.dir}/org.wikipathways.applet/src"/>
<packageset dir="${src.dir}/org.pathvisio.gex/src"/>
<packageset dir="${src.dir}/org.pathvisio.visualization/src"/>
<packageset dir="${src.dir}/org.pathvisio.statistics/src"/>
<sourcepath>
<pathelement location="${src.dir}/org.pathvisio.core/src"/>
<pathelement location="${src.dir}/org.pathvisio.data/src"/>
<pathelement location="${src.dir}/org.pathvisio.pluginmanager/src"/>
<pathelement location="${src.dir}/org.pathvisio.gex/src"/>
<pathelement location="${src.dir}/org.pathvisio.visualization/src"/>
<pathelement location="${src.dir}/org.pathvisio.statistics/src"/>
<pathelement location="${src.dir}/org.pathvisio.gui/src"/>
<pathelement location="${src.dir}/org.pathvisio.desktop/src"/>
</sourcepath>
</javadoc>
</target>
<target name="zip.src" description="create source tarball and zip">
<property name="srcbase" value="pathvisio_src-${pathvisio.version}"/>
<zip destfile="${release.dir}/${srcbase}.zip">
<zipfileset dir="." prefix="pathvisio-${pathvisio.version}">
<include name="modules/**/*"/>
<exclude name="modules/**/*.class"/>
<include name="lib/**/*"/>
<include name="lib-build/*.jar"/>
<include name="resources/**/*"/>
<include name="GPML.xsd"/>
<include name="LICENSE-2.0.txt"/>
<include name="NOTICE.txt"/>
<include name="readme.txt"/>
<include name="example-data/**/*"/>
<include name="testData/**/*"/>
<include name="build.xml"/>
<include name="build-common.xml"/>
<include name="pathvisio.sh"/>
<include name="pathvisio.bat"/>
</zipfileset>
</zip>
<tar destfile="${release.dir}/${srcbase}.tar.gz" compression="gzip">
<zipfileset src="${release.dir}/${srcbase}.zip"/>
</tar>
</target>
<target name="zip.bin" depends="exe" description="create binary tarball and zip">
<property name="binbase" value="pathvisio_bin-${pathvisio.version}"/>
<zip destfile="${release.dir}/${binbase}.zip">
<zipfileset dir="." prefix="pathvisio-${pathvisio.version}">
<include name="pathvisio.jar"/>
<include name="LICENSE-2.0.txt"/>
<include name="NOTICE.txt"/>
<include name="readme.txt"/>
<include name="pathvisio.sh"/>
<include name="pathvisio.bat"/>
</zipfileset>
</zip>
<tar destfile="${release.dir}/${binbase}.tar.gz" compression="gzip">
<zipfileset src="${release.dir}/${binbase}.zip"/>
</tar>
</target>
<target name="zip" depends="zip.src,zip.bin" description="create both source and binary tarballs and zips"/>
<target name="test" depends="desktop.jar">
<subant target="test" buildpath="modules/org.pathvisio.core/build.xml"/>
<subant target="test" buildpath="modules/org.pathvisio.desktop/build.xml"/>
</target>
<taskdef resource="checkstyletask.properties"
classpath="lib-build/checkstyle-all-5.0.jar"/>
<target name="checkstyle">
<checkstyle config="pv_checks.xml">
<fileset dir="modules">
<include name="**/*.java"/>
</fileset>
<formatter toFile="${checkstyle.output.file}"/>
</checkstyle>
</target>
<target name="appbundler" depends="exe" description="Generate OS X Bundle">
<property name="app.name" value="PathVisio" />
<property name="app.icon" value="bigcateye.icns"/>
<property name="app.dir" value="${release.dir}/${app.name}.app" />
<property name="app.executableName" value="JavaApplicationStub" />
<tstamp>
<format property="year" pattern="yyyy"/>
</tstamp>
<mkdir dir="${app.dir}/Contents/Java"/>
<mkdir dir="${app.dir}/Contents/MacOS"/>
<mkdir dir="${app.dir}/Contents/Resources/en.lproj"/>
<copy todir="${app.dir}/Contents/Java" file="pathvisio.jar" />
<copy todir="${app.dir}/Contents/MacOS" file="${app.executableName}" />
<copy todir="${app.dir}/Contents/Resources" file="lib-build/${app.icon}" />
<echo message="AAPL????" file="${app.dir}/Contents/PkgInfo" />
<copy todir="${app.dir}/Contents/" file="Info.plist" overwrite="true">
<filterset>
<filter token="PV_APP_NAME" value="${app.name}" />
<filter token="PV_APP_VERSION" value="${pathvisio.version}" />
<filter token="PV_APP_SHORT_VERSION" value="${pathvisio.version}" />
<filter token="PV_APP_ICON" value="${app.icon}" />
<filter token="PV_APP_COPYRIGHT" value="2006-${year} BiGCaT Bioinformatics" />
</filterset>
</copy>
<zip destfile="${release.dir}/${app.name}.app.zip">
<zipfileset prefix="${app.name}.app" dir="${app.dir}" excludes="${app.dir}/Contents/MacOS/${app.executableName}" />
<zipfileset prefix="${app.name}.app/Contents/MacOS" file="${app.dir}/Contents/MacOS/${app.executableName}" filemode="755" />
</zip>
<delete dir="${app.dir}" />
</target>
</project>