build.xml

<?xml version="1.0" encoding="utf-8"?>

<!-- ============================================================= -->
<project name="BeeDeeM-Tools" default="help" basedir=".">

	<property name="lbasedir" value="${basedir}" />

	<property name="compile.optimize" value="on" />
	<property name="compile.debug" value="off" />
	<property name="compile.deprecation" value="off" />

	<property file="${basedir}/src/fr/ifremer/bioinfo/resources/version.properties" />

	<property name="src" value="${lbasedir}/src" />
	<property name="jar" value="${lbasedir}/jar" />
	<property name="lib" value="${lbasedir}/lib" />
	<property name="scripts" value="${lbasedir}/scripts" />

	<property name="distrib" value="${lbasedir}/distrib" />

	<property name="Dsrc" value="${distrib}/src" />
	<property name="Dbin" value="${distrib}/bin" />
	<property name="Dlib" value="${distrib}/lib" />
	<property name="Dtr" value="${distrib}/tests-result" />
  <property name="Dscripts" value="${distrib}/scripts" />
  <property name="Dnative" value="${distrib}/native" />
  <property name="Ddata" value="${distrib}/data" />

	<property name="appname" value="${prg.name}-${prg.version}" />
	<property name="appjar" value="${appname}.jar" />
	<property name="apptar" value="${appname}.tar" />

	<path id="class.path">
		<pathelement path="${classpath}" />
		<fileset dir="${jar}">
			<include name="**/*.jar" />
		</fileset>
		<pathelement location="${lib}" />
	</path>

	<path id="distribClass.path">
		<fileset dir="${distrib}/bin">
			<include name="**/*.jar" />
		</fileset>
		<pathelement location="${distrib}/lib" />
	</path>

	<!-- ============================================================= -->
	<target name="help">
		<echo>This is the Ant's project file to manage BeeDeeM-Tools.</echo>
		<echo />
		<echo>Available targets are:</echo>
		<echo>        makejar: only compile and package BDM-Tools jar</echo>
		<echo>    makedistrib: prepare the full release file</echo>
		<echo>             ut: compile software and run unit tests</echo>
		<echo />
	</target>
	
  <!-- ============================================================= -->
  <!-- check Ant and Java version                                    -->
  <target name="checkversion">
    <echo>Current Ant version is: ${ant.version}</echo>
    <fail message="***   Ant 1.9.1+ required   ***">
      <!-- ant 1.9.1 introduced unless directive used in this script-->
      <condition>
        <not>
          <antversion atleast="1.9.1" />
        </not>
      </condition>
    </fail>
    <echo>  ok</echo>
    <echo>Current Java version is: ${ant.java.version}</echo>
    <fail message="***   Oracle Java SDK 1.8+ not found   ***">
      <condition>
        <not>
          <or>
            <equals arg1="1.8" arg2="${ant.java.version}" />
            <equals arg1="1.9" arg2="${ant.java.version}" />
          </or>
        </not>
      </condition>
    </fail>
    <echo>  ok</echo>
  </target>

	<!-- ============================================================= -->
	<!-- Prepare directory structure used to compile and package sof   -->
	<target name="prepare" depends="checkversion">
		<!-- Prepare the distrib directory tree -->
		<delete dir="${distrib}" />
		<mkdir dir="${Dsrc}" />
		<mkdir dir="${Dbin}" />
		<mkdir dir="${Dlib}" />
    <mkdir dir="${Ddata}" />
    <mkdir dir="${Dnative}" />
	</target>

  <!-- ============================================================= -->
  <!-- Compile code and make software Jar                            -->
	<target name="makejar" depends="prepare">
		<!-- Copy all necessary jar files (third party librairies) -->
		<copy todir="${Dbin}">
			<fileset dir="${jar}" >
				<exclude name="junit*" />
			</fileset>
		</copy>
		<!-- Copy Java source code files -->
		<copy todir="${Dsrc}">
			<fileset dir="${src}">
				<exclude name="test/**" />
			</fileset>
		</copy>
		<!-- Compile source code ready for distribution-->
		<javac srcdir="${Dsrc}" 
	           destdir="${Dlib}" 
	           classpathref="distribClass.path" 
	           debug="${compile.debug}" 
	           optimize="${compile.optimize}" 
	           deprecation="${compile.deprecation}">
		</javac>
		<copy todir="${Dlib}">
			<fileset dir="${src}">
				<include name="**/*.properties" />
			</fileset>
		</copy>
		<!-- Make the Jar for the full application -->
		<jar destfile="${Dbin}/${appjar}">
			<fileset dir="${Dlib}" />
			<manifest>
				<attribute name="Built-By" value="IFREMER Bioinformatics Team" />
			</manifest>
		</jar>
	</target>

	<!-- ============================================================= -->
  <!-- Compile code and make software dustribution package           -->
	<target name="makedistrib" depends="makejar">
		<!-- Copy the cmdline scripts for Mac and Linux -->
    <copy todir="${distrib}">
      <fileset dir="${scripts}">
        <include name="**/*.sh" />
      </fileset>
    </copy>
    <!-- Copy the PLAST native c++ lib for Mac and Linux -->
    <copy todir="${Dnative}">
      <fileset dir="${lbasedir}/native">
        <include name="**/*" />
      </fileset>
    </copy>
    <!-- Copy the PLAST banks to enable test on sample data -->
    <copy todir="${Ddata}">
      <fileset dir="${lbasedir}/tests/databank/plast">
        <include name="**/*.fa" />
      </fileset>
    </copy>

		<!-- Copy license files-->
		<copy file="${lbasedir}/LICENSE.txt" todir="${distrib}/license" />
		<copy file="${lbasedir}/NOTICE.txt" todir="${distrib}/license" />

		<!-- remove useless data -->
		<delete dir="${Dlib}" />
		<delete dir="${Dsrc}" />
		<tar tarfile="${distrib}/${apptar}" basedir="${distrib}" />
		<gzip zipfile="${distrib}/${apptar}.gz" src="${distrib}/${apptar}" />
		<delete file="${distrib}/${apptar}" />
		<delete dir="${Dbin}" />
		<delete dir="${Dnative}" />
		<delete dir="${Dlicense}" />
		<delete>
		    <fileset dir="${distrib}" includes="*.sh*" />
		</delete>
	</target>

	<!-- ============================================================= -->
	<!-- Compile code and run Unit Tests                               -->
	<target name="ut" depends="prepare">
		<!-- Ant/JUnit doc: https://ant.apache.org/manual/Tasks/junit.html -->
		<mkdir dir="${Dtr}" />
		<!-- Copy all necessary jar files (third party librairies) -->
		<copy todir="${Dbin}">
			<fileset dir="${jar}">
				<exclude name="ant*" />
			</fileset>
		</copy>
		<!-- Copy Java source code files -->
		<copy todir="${Dsrc}">
			<fileset dir="${src}" />
		</copy>
		<!-- Compile source code ready for distribution-->
		<javac srcdir="${Dsrc}" 
             destdir="${Dlib}" 
             classpathref="distribClass.path" 
             debug="on" 
             optimize="off" 
             deprecation="off">
		</javac>
		<!-- Copy resource files -->
		<copy todir="${Dlib}">
			<fileset dir="${src}">
				<include name="**/*.properties" />
			</fileset>
		</copy>
		<!-- Start Test Suite -->
		<antcall target="ut2" />
	</target>

	<target name="ut2">
		<junit printsummary="yes" fork="yes" haltonfailure="yes">
			<classpath>
				<path refid="distribClass.path"/>
			</classpath>
			<formatter type="plain"/>
			<test name="test.unit.AllTests" todir="${Dtr}"/>
			<jvmarg value="-Djava.library.path=native"/>
		</junit>
		<echo>Test results are in: ${Dtr}</echo>
	</target>

</project>