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build_pathogen.xml
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build_pathogen.xml
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<project name="Pathogen" default="build" basedir=".">
<description>
Build file for PATHOGEN release versions, It is also used by Hudson Pathogen project.
$Id: build_pathogen.xml,v 1.5 2006/09/09 18:16:17 rambaut Exp $
</description>
<!-- set global properties for this build -->
<property name="src" location="src"/>
<property name="build" location="build"/>
<property name="lib" location="lib"/>
<property name="dist" location="dist"/>
<path id="classpath">
<fileset dir="${lib}" includes="**/*.jar"/>
</path>
<property environment="env"/>
<target name="init">
<!-- Create the time stamp -->
<echo message="${ant.project.name}: ${ant.file}" />
<tstamp/>
<!-- Create the build directory structure used by compile -->
<mkdir dir="${build}"/>
<mkdir dir="${dist}"/>
</target>
<target name="compile" depends="init">
<!-- Compile the java code from ${src} into ${build} -->
<javac source="1.6" srcdir="${src}" destdir="${build}" classpathref="classpath">
<include name="dr/app/pathogen/**"/>
<include name="dr/app/beauti/**"/>
<include name="dr/app/tools/**"/>
<include name="dr/app/util/**"/>
<include name="dr/evolution/io/**"/>
<include name="dr/evolution/datatype/**"/>
<include name="dr/evolution/sequence/**"/>
<include name="dr/evolution/alignment/**"/>
<include name="dr/evolution/tree/**"/>
<include name="dr/evolution/util/**"/>
<include name="dr/app/gui/**"/>
<include name="dr/matrix/**"/>
<include name="dr/stats/**"/>
<include name="dr/math/**"/>
<include name="dr/util/**"/>
<include name="org/virion/jam/**"/>
</javac>
</target>
<target name="build" depends="compile" description="generate the jar file">
<!-- Create the distribution directory -->
<mkdir dir="${dist}"/>
<!-- Put everything in ${build} into the treestat.jar file -->
<jar jarfile="${dist}/pathogen.jar">
<manifest>
<attribute name="Built-By" value="${user.name}"/>
<attribute name="Main-Class" value="dr.app.pathogen.PathogenApp"/>
</manifest>
<fileset dir="${build}">
<include name="dr/app/pathogen/**/*.class"/>
<include name="dr/app/beauti/**/*.class"/>
<include name="dr/app/tools/**/*.class"/>
<include name="dr/app/util/**/*.class"/>
<include name="dr/evolution/io/**/*.class"/>
<include name="dr/evolution/datatype/**/*.class"/>
<include name="dr/evolution/sequence/**/*.class"/>
<include name="dr/evolution/alignment/**/*.class"/>
<include name="dr/evolution/tree/**/*.class"/>
<include name="dr/evolution/util/**/*.class"/>
<include name="dr/app/gui/**/*.class"/>
<include name="dr/matrix/**/*.class"/>
<include name="dr/stats/**/*.class"/>
<include name="dr/math/**/*.class"/>
<include name="dr/util/**/*.class"/>
</fileset>
<fileset dir="">
<include name="images/*.png"/>
</fileset>
<fileset dir="${src}">
<include name="dr/app/pathogen/**/*.png"/>
<include name="dr/app/gui/**/*.png"/>
<include name="org/virion/jam/**/*.png"/>
<include name="dr/gui/table/**/*.png"/>
</fileset>
<zipgroupfileset dir="${lib}" includes="**/jebl.jar"/>
<zipgroupfileset dir="${lib}" includes="**/jam.jar"/>
<zipgroupfileset dir="${lib}" includes="**/figtreepanel.jar"/>
</jar>
</target>
<property name="version" value="1.5" />
<property name="release_dir" value="release_pathogen" />
<property name="name" value="Path-O-Gen" />
<property name="common_dir" value="${release_dir}/common" />
<property name="Mac_dir" value="${release_dir}/Mac" />
<property name="Linux_dir" value="${release_dir}/Linux" />
<property name="Windows_dir" value="${release_dir}/Windows" />
<property name="Mac_package_dir" value="${Mac_dir}/${name} v${version}" />
<property name="Linux_package_dir" value="${Linux_dir}/${name}_v${version}" />
<property name="Windows_package_dir" value="${Windows_dir}/${name} v${version}" />
<!-- Need to either install Launch4j under {BEAST workspace}/${release}
or install it in the default directory and change the location of launch4j.dir -->
<target name="windows" depends="build" description="release Windows version of Pathogen">
<delete dir="${Windows_package_dir}" />
<!-- Create the release directory -->
<mkdir dir="${Windows_package_dir}" />
<property name="launch4j.dir" location="${Windows_dir}/launch4j" />
<taskdef name="launch4j" classname="net.sf.launch4j.ant.Launch4jTask"
classpath="${launch4j.dir}/launch4j.jar :${launch4j.dir}/lib/xstream.jar" />
<copy file="${dist}/pathogen.jar" todir="${Windows_package_dir}/lib"/>
<copy todir="${Windows_package_dir}/lib">
<fileset dir="${Windows_dir}/lib"/>
</copy>
<copy file="${common_dir}/README.txt" todir="${Windows_package_dir}"/>
<launch4j configFile="${Windows_dir}/pathogen_launch4j.xml"
jar="${dist}/pathogen.jar"
outfile="${Windows_package_dir}/${name} v${version}.exe"
fileVersion="${version}.0.0"
txtFileVersion="${version}"
productVersion="${version}.0.0"
txtProductVersion="${version}"/>
<zip destfile="${release_dir}/${name} v${version}.zip">
<zipfileset dir="${Windows_package_dir}" prefix="${name} v${version}"/>
</zip>
<echo message="Windows version release is finished." />
</target>
<target name="linux" depends="build" description="release Linux/Unix version of Pathogen">
<delete dir="${Linux_package_dir}" />
<!-- Create the release directory -->
<mkdir dir="${Linux_package_dir}" />
<copy todir="${Linux_package_dir}/bin">
<fileset dir="${Linux_dir}/scripts"/>
</copy>
<chmod dir="${Linux_package_dir}/bin" perm="755" includes="**/**"/>
<copy file="${Linux_dir}/icons/pathogen.png" todir="${Linux_package_dir}/images"/>
<copy file="${dist}/pathogen.jar" todir="${Linux_package_dir}/lib"/>
<copy todir="${Linux_package_dir}/lib">
<fileset dir="${Linux_dir}/lib"/>
</copy>
<copy file="${common_dir}/README.txt" todir="${Linux_package_dir}"/>
<tar destfile="${release_dir}/${name}_v${version}.tgz" compression="gzip">
<tarfileset dir="${Linux_package_dir}" prefix="${name}_v${version}"/>
</tar>
<echo message="Linux/Unix version release is finished." />
</target>
<target name="mac" depends="build" description="release Mac version of Pathogen">
<delete dir="${Mac_package_dir}" />
<!-- Create the release directory -->
<mkdir dir="${Mac_package_dir}" />
<copy file="${common_dir}/README.txt" todir="${Mac_package_dir}"/>
<taskdef name="jarbundler" classname="net.sourceforge.jarbundler.JarBundler"/>
<!-- create a jar bundle for the mac -->
<jarbundler dir="${Mac_package_dir}"
name="${name} v${version}"
mainclass="dr.app.pathogen.PathogenApp"
stubfile="${Mac_dir}/universalJavaApplicationStub"
icon="${Mac_dir}/icons/Path-O-Gen.icns"
jvmversion="1.6+"
arguments=""
version="${version}"
infostring="${name} v${version}, Copyright 2006-2015, Andrew Rambaut"
bundleid="pathogen" >
<javaproperty name="apple.laf.useScreenMenuBar" value="true"/>
<jarfileset dir="${dist}">
<include name="**/pathogen.jar"/>
</jarfileset>
<jarfileset dir="${Mac_dir}/lib">
<include name="**/*.jar"/>
</jarfileset>
</jarbundler>
<echo message="Building disk image." />
<!-- create disk image -->
<exec executable="/usr/bin/hdiutil">
<arg value="create"/>
<arg value="-ov"/>
<arg value="-srcfolder"/>
<arg value="${Mac_package_dir}"/>
<arg value="-volname"/>
<arg value="${name} v${version}"/>
<arg value="-imagekey"/>
<arg value="zlib-level=6"/>
<arg value="${release_dir}/${name} v${version}.dmg"/>
</exec>
<echo message="Mac version release is finished." />
</target>
</project>