autoaligner.xml

<project name="Autoaligner" basedir="." default="main">
    <taskdef resource="net/sf/antcontrib/antcontrib.properties"/>  
	
	<property file="autoaligner.properties"/>
	<property environment="env"/>
	
	<target name="clean">
		<delete dir="${release.base.dir}"/>
	</target>

	
	<target name="master-jar" description="creates the master jar file with all code" depends="clean">
		<!-- Copy Driver -->
		<macrodef name="copy-class">
			<attribute name="jarpath"/>
			<sequential>
				<!-- <mkdir dir="${release.build.dir}/@{jarpath}"/> -->
				<copy todir="${release.build.dir}/@{jarpath}">
					<fileset dir="${classes.dir}/@{jarpath}">
						<include name="**/*class"/>
						<include name="**/*properties"/>
					</fileset>
				</copy>
			
			</sequential>
		</macrodef>
		
		
		
		<!-- Load in jar names and copy them to the build directory -->
		<echo>Copying class files</echo>
				
		<for list="${class.select}" param="jar.location">
			<sequential>
				<copy-class jarpath="@{jar.location}"/>
			</sequential>
		</for>
		
		
		<!-- Build the jar -->
		<jar destfile="${release.base.dir}/autoaligner.jar" basedir="${release.build.dir}" compress="false">
			<zipgroupfileset dir="ExternalJars" includes="*.jar" />
			<manifest>
			    <attribute name="Main-Class" value="autoaligner/Autoaligner"/>
				<attribute name="Manifest-Version" value="1.0"/>
				<attribute name="Implementation-Vendor" value="Implementation-Vendor: University of Utah Bioinformatics Shared Resource (http://bioserver.hci.utah.edu)"/>
				<attribute name="Implementation-Version" value="${release_name}"/>
			</manifest>
		</jar>
		
		<!-- Clean up build directory -->
		<delete dir="${release.build.dir}"/>
		
		<!-- Copy data files -->
		<copy todir="${release.base.dir}">
			<fileset dir="${data.dir}"/>
		</copy>
				
	</target>
	
					
	
	
	<target name="main" depends="master-jar"/>
	
				
	
</project>