build.xml

<project name="CIKNOW" basedir="." default="deploy-ciknow-assembler">
	<property file="build.properties"/>
    <property environment="env"/>
	
	
	<property name="app.name"      value="${context}"/>
	<property name="app.path"      value="/${app.name}"/>
	<property name="app.version"   value="1.0"/>
	<property name="build"    value="${basedir}/build"/>
	<property name="dist"     value="${basedir}/dist"/>
	<property name="docs"     value="${basedir}/docs"/>
	<property name="src"      value="${basedir}/src"/>
	<property name="test"      value="${basedir}/test"/>
	<property name="web"      value="${basedir}/web"/>
	<property name="manager.url"   value="http://127.0.0.1:8080/manager"/>
	
	<tstamp>
		<format property="start.timestamp" pattern="MM/dd/yyyy HH:mm:ss" />
	</tstamp>
		
	<path id="compile.classpath">
		<fileset dir="${env.CATALINA_HOME}/bin">
			<include name="*.jar"/>
		</fileset>
		<pathelement location="${env.CATALINA_HOME}/lib"/>
		<fileset dir="${env.CATALINA_HOME}/lib">
			<include name="**/*.jar"/>
		</fileset>

		<fileset dir="${web}/WEB-INF/lib">
			<include name="**/*.jar"/>
		</fileset>
	</path>
	
	<path id="classpath">
		<path refid="compile.classpath"/>
		<pathelement location="${build}/WEB-INF/classes"/>
	</path>
	
	<taskdef resource="org/apache/catalina/ant/catalina.tasks"
		classpathref="compile.classpath"/>

	<property name="compile.debug"       value="true"/>
	<property name="compile.deprecation" value="false"/>
	<property name="compile.optimize"    value="true"/>
	
	<target name="clean" description="Delete old build and dist directories">
		<delete dir="${build}"/>
		<delete dir="${dist}"/>
	</target>

	<target name="prepare">
		<echo>${start.timestamp}</echo>
		
		<mkdir  dir="${build}"/>
		
		<copy todir="${build}">
			<fileset dir="${web}"/>
		</copy>		
	</target>
		
	<target name="compile" depends="prepare" 
		description="Compile Java sources and make web application">
		<javac srcdir="${src}"
			destdir="${build}/WEB-INF/classes"
            debug="${compile.debug}"
      		deprecation="${compile.deprecation}"
         	optimize="${compile.optimize}"
			classpathref="compile.classpath">
		</javac>
		
		<javac srcdir="${test}"
			destdir="${build}/WEB-INF/classes"
            debug="${compile.debug}"
      		deprecation="${compile.deprecation}"
         	optimize="${compile.optimize}"
			classpathref="compile.classpath">
		</javac>

		<copy  todir="${build}/WEB-INF/classes">
			<fileset dir="${src}" excludes="**/*.java"/>
		</copy>
    </target>

	<target name="deploy-ciknow-assembler" depends="clean, compile" 
		description="Copy ciknow server components to ciknow-assembler">
        		
		<copy toDir="${ciknow.assembler.dir}/build">
			<fileset dir="${build}" excludes="**/*Test.class"/>
		</copy>				
	</target> 
	
	<target name="deploy-ciknowmgr-assembler" depends="clean, compile" 
		description="Copy ciknow server components to ciknow-assembler">
        
		<!-- For publishing _ciknow.war -->
		<copy toDir="${ciknowmgr.assembler.dir}/build/WEB-INF/template/temp" overwrite="true">
			<fileset dir="${build}" excludes="**/*Test.class"/>
		</copy>
			
		<copy toDir="${ciknowmgr.assembler.dir}/build/WEB-INF/template/server">
			<fileset dir="${build}" excludes="**/*Test.class"/>
		</copy>		
	</target> 
		
	
	
    <target name="dev_restart" description="--> restart project">
		<reload url="${manager.url}"
	       username="${manager.username}"
	       password="${manager.password}"
	           path="/${context}"/>
    </target>
	
	<target name="dev-list"
	   description="List installed applications on servlet container">

		<list    url="${manager.url}"
	        username="${manager.username}"
	        password="${manager.password}"/>

	</target>
	

	
	<!-- testing -->
    <target name="testEdgeDao" depends="compile">
            <java classname="ciknow.dao.hibernate.EdgeHibernateDao"
			    	fork="true"
			    	maxmemory="1000m"
			    	failonerror="true">
            	<classpath refid="classpath"/>
            </java>
    </target>
	
    <target name="testNodeDao" depends="compile">
            <java classname="ciknow.dao.hibernate.NodeHibernateDao"
			    	fork="true"
			    	maxmemory="1000m"
			    	failonerror="true">
            	<classpath refid="classpath"/>
            </java>
    </target>	
            	
            	
	<!-- - - - - - - - - - - - - - - - - - 
          target: runNetworkAnalytics                      
         - - - - - - - - - - - - - - - - - -->
    <target name="runNetworkAnalytics">
            <java classname="ciknow.graph.metrics.NetworkAnalytics">
            	<classpath refid="classpath"/>
            </java>
    </target>

	<!-- - - - - - - - - - - - - - - - - - 
          target: runNetworkAnalyticsRO                      
         - - - - - - - - - - - - - - - - - -->
    <target name="runNetworkAnalyticsRO">
            <java classname="ciknow.ro.NetworkAnalyticsRO">
            	<classpath refid="classpath"/>
            </java>
    </target>
	
	<!-- - - - - - - - - - - - - - - - - - 
          target: runEdgeRO                      
         - - - - - - - - - - - - - - - - - -->

    <target name="runSLReader">
            <java classname="ciknow.io.secondlife.SecondLifeReaderUtil"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="6000m">
            	<classpath refid="classpath"/>
            </java>
    </target>
	
    <target name="runSLConverter">
            <java classname="ciknow.io.secondlife.Converter"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="4096m">
            	<classpath refid="classpath"/>
            </java>
    </target>
	
    <target name="runSLComponentFinder2">
            <java classname="ciknow.io.secondlife.ComponentFinder2"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="6000m">
            	<classpath refid="classpath"/>
            </java>
    </target>
	
    <target name="runSLReverter">
            <java classname="ciknow.io.secondlife.Reverter"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="4096m">
            	<classpath refid="classpath"/>
            </java>
    </target>
	
	<!-- - - - - - - - - - - - - - - - - - 
          target: runNodeTaggingHibernateDao                      
         - - - - - - - - - - - - - - - - - -->
    <target name="runNodeTaggingHibernateDao">
            <java classname="ciknow.dao.hibernate.NodeTaggingHibernateDao">
            	<classpath refid="classpath"/>
            </java>
    </target>	
	
    <target name="runContactWriter">
            <java classname="ciknow.survey.io.ContactWriter"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="6000m">
            	<classpath refid="classpath"/>
            	<arg line="/home/ciknow/data/users.txt"/>
            </java>
    </target>
	
    <target name="runContactReader">
            <java classname="ciknow.survey.io.ContactReader"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="6000m">
            	<classpath refid="classpath"/>
            	<arg line="/home/ciknow/data/users.txt"/>
            </java>
    </target>
	
    <target name="runQuestionWriter">
            <java classname="ciknow.survey.io.QuestionWriter"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="6000m">
            	<classpath refid="classpath"/>
            	<arg line="/home/ciknow/data/question.txt 2"/>
            </java>
    </target>
	
    <target name="runQuestionReader">
            <java classname="ciknow.survey.io.QuestionReader"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="6000m">
            	<classpath refid="classpath"/>
            	<arg line="/home/ciknow/data/question.txt"/>
            </java>
    </target>	
    	
    <target name="runNodeDataWriter" depends="compile">
            <java classname="ciknow.io.NodeDataWriter"
            	fork="false"
            	failonerror="true"
    			maxmemory="1024m">
            	<classpath refid="classpath"/>
            	<arg line=""/>
            </java>
    </target>
	
    <target name="runNodeDataReader">
            <java classname="ciknow.io.NodeDataReader"
            	fork="false"
            	failonerror="true"
    			maxmemory="1024m">
            	<classpath refid="classpath"/>
            </java>
    </target>
    	
    <target name="runEdgeDataWriter" depends="compile">
            <java classname="ciknow.io.EdgeDataWriter"
            	fork="true"
            	failonerror="true"
    			maxmemory="1024m">
            	<classpath refid="classpath"/>
            	<arg line=""/>
            </java>
    </target>

    <target name="runDLQuestionReader">
            <java classname="ciknow.survey.io.DLQuestionReader"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="6000m">
            	<classpath refid="classpath"/>
            	<arg line="/home/ciknow/data/Un.txt"/>
            </java>
    </target>	
	
    <target name="runLocalNetwork">
            <java classname="ciknow.vis.LocalNetwork"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="6000m">
            	<classpath refid="classpath"/>
            </java>
    </target>
	
    <target name="runEdgeRO">
            <java classname="ciknow.ro.EdgeRO"
            	fork="true"
            	jvm="/opt/jdk1.6.0_03/bin/java"
            	failonerror="true"
    			maxmemory="6000m">
            	<classpath refid="classpath"/>
            	<arg line="d.PAuthorship.PCitation 1 Authorship -1 1"/>
            </java>
    </target>	
	
	
	<!-- ############################### RECOMMENDER ############################### -->
    <target name="runEdgeWeightUpdator" depends="compile">
            <java classname="ciknow.util.GeneralUtil"
            	fork="true"
            	maxmemory="1000m"
            	failonerror="true">
            	<classpath refid="classpath"/>
            </java>
    </target>
    	
    <target name="runDistanceCalculator" depends="compile">
            <java classname="ciknow.recommend.calculate.DistanceCalculator"
            	fork="true"
            	maxmemory="1000m"
            	failonerror="true">
            	<classpath refid="classpath"/>
            </java>
    </target>

    <target name="runMetricCalculator" depends="compile">
            <java classname="ciknow.recommend.calculate.MetricCalculator"
            	fork="true"
            	maxmemory="1000m"
            	failonerror="true">
            	<classpath refid="classpath"/>
            </java>
    </target>
    	
    <target name="runGeodesicCalculator" depends="compile">
            <java classname="ciknow.recommend.calculate.GeodesicCalculator"
            	fork="true"
            	maxmemory="1000m"
            	failonerror="true">
            	<classpath refid="classpath"/>
            </java>
    </target>
	
    <target name="runRecommender" depends="compile">
            <java classname="ciknow.recommend.service.RecommenderServiceImpl"
            	fork="true"
            	maxmemory="1000m"
            	failonerror="true">
            	<classpath refid="classpath"/>
            </java>
    </target>
    
	
	<!-- ######################### data import/export ####################### -->	
	
    <target name="graphmlReader" depends="compile">
        <replace file="${build}/WEB-INF/classes/applicationContext-datasource.xml"
                 token="_ciknow" value="${context}"/>  
    	
        <java classname="ciknow.io.GraphmlReader"
        	fork="true"
        	maxmemory="1500m"
        	failonerror="true">
        	<classpath refid="classpath"/>
        	<arg line="${export.dir} ${context}"/>
        </java> 
    	
        <replace file="${build}/WEB-INF/classes/applicationContext-datasource.xml"
                 token="${context}" value="_ciknow"/>      	
    </target>
    	
    <target name="graphmlWriter" depends="compile">
        <replace file="${build}/WEB-INF/classes/applicationContext-datasource.xml"
                 token="_ciknow" value="${context}"/>  
    	
        <java classname="ciknow.io.GraphmlWriter"
        	fork="true"
        	maxmemory="1532m"
        	failonerror="true">
        	<classpath refid="classpath"/>
        	<arg line="${export.dir} ${context}"/>
        </java>  
    	
        <replace file="${build}/WEB-INF/classes/applicationContext-datasource.xml"
                 token="${context}" value="_ciknow"/>     	
    </target>
	
    <target name="runPerceivedChoice2MultipleRelationalChoice" depends="compile">
        <replace file="${build}/WEB-INF/classes/applicationContext-datasource.xml"
                 token="_ciknow" value="${context}"/>  
    	
        <java classname="ciknow.io.temp.PerceivedChoice2MultipleRelationalChoice"
        	fork="true"
        	maxmemory="1500m"
        	failonerror="true">
        	<classpath refid="classpath"/>
        	<!--arg line="${export.dir}/filename.txt shortName"/-->
        	<arg line="${export.dir}/futurecol.txt futurecol_derived"/>
        </java>  
    	
        <replace file="${build}/WEB-INF/classes/applicationContext-datasource.xml"
                 token="${context}" value="_ciknow"/>     	
    </target>
	
    <target name="tunning_recommender" depends="compile">
        <java classname="ciknow.tunning.RecommenderServiceTest"
        	fork="true"
        	maxmemory="2560m"
        	failonerror="true">
        	<classpath refid="classpath"/>
        </java>   	
    </target>
	
    <target name="copyPagesWithDynamicGroup" depends="compile">
        <replace file="${build}/WEB-INF/classes/applicationContext-datasource.xml"
                 token="_ciknow" value="${context}"/>  
    	
        <java classname="ciknow.tmp.PageCopyWithDynamicGroup"
        	fork="true"
        	maxmemory="256m"
        	failonerror="true">
        	<classpath refid="classpath"/>
        	<arg line="1 COPY C:/Users/gyao/git/ciknow/web/groups.txt"/>
        </java>  
    	
        <replace file="${build}/WEB-INF/classes/applicationContext-datasource.xml"
                 token="${context}" value="_ciknow"/>     	
    </target>


	<!-- ############################### JAR ############################### -->
	<path id="weblib.classpath">
		<fileset dir="${build}/WEB-INF/lib">
			<include name="**/*.jar"/>
		</fileset>
	</path>
	
	<!-- 
	Create jar file to run in command line
	This is a request from Koehly, Laura (NIH/NHGRI) [E] koehlyl@mail.nih.gov
	Note: 
	1, The applicationContext-security.xml should be commented out in Beans.init() before jaring
	2, The created ciknow.jar should be place in the same directory as WEB-INF
	3, To run: java -jar ciknow.jar questionId1 questionId2 ...
	4, Exported data file is edgeData.txt in the current directory (where you run the program)
	
	!!!!! this approach was dropped. the code left here is just to document the knowledge learned in the process !!!!
	 -->
    <target name="jar_ciknow" depends="compile">   
    	<manifestclasspath property="jar.classpath"
    	                   jarfile="${build}/ciknow.jar">
    	      <classpath refid="weblib.classpath" />
    	</manifestclasspath>
    	
    	<jar destfile="${build}/ciknow.jar">
    		<fileset dir="${build}/WEB-INF/classes">
    			<exclude name="**/*Test.class"/>
    		</fileset>
    			
    	    <manifest>
    	      	<attribute name="Main-Class" value="ciknow.io.EdgeDataWriter"/>	    
    	    	<attribute name="Class-Path" value="${jar.classpath}" />      	    	
    	    </manifest>
    	</jar>
    </target>
</project>