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build_common.xml
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<!-- this is a 'superclass' ant script with all stuff in common.
It should be used via 'import' plus passing of properties
'app_properties' (reference properties file) and
'app_src' (listing of the src folders to be included) -->
<project xmlns:ivy="antlib:org.apache.ivy.ant" name="build_common">
<mkdir dir="WebContent/WEB-INF/lib" />
<!-- requires app_name, app_properties properties and app_src path -->
<fail unless="app_properties">app_properties is not set. Did you use the right build_xyz.xml?</fail>
<available file="${app_properties}" property="isFileAvail" />
<fail unless="isFileAvail" message="app_properties file not found: ${app_properties}" />
<fail unless="app_name">app_name is not set. Did you use the right build_xyz.xml?</fail>
<echo>Running Ant for MOLGENIS App "${app_name}" using basedir ${basedir}</echo>
<!-- static properties shared between all apps-->
<property file="${app_properties}" />
<property name="molgenis.dir" value="../molgenis-legacy" />
<property name="build.molgenis.dir" value="../molgenis-legacy/bin" />
<property name="build.molgenis_apps.dir" value="build/classes" />
<property name="testng.report.dir" value="dist/test-output" />
<property name="war.dir" value="dist/war" />
<property name="war.name" value="${app_name}.war" />
<property name="webxml.dir" value="WebContent/WEB-INF/web.xml" />
<property name="lib.dir" value="WebContent/WEB-INF/lib" />
<!-- path to MOLGENIS toolkit -->
<path id="molgenis.classpath">
<pathelement location="${build.molgenis.dir}" />
<pathelement location="${build.molgenis_apps.dir}" />
<fileset dir="../molgenis-legacy/lib">
<include name="**/*.jar" />
</fileset>
<fileset dir="WebContent/WEB-INF/lib">
<include name="**/*.jar" />
</fileset>
</path>
<!-- path to app src -->
<taskdef resource="testngtasks" classpathref="molgenis.classpath" />
<taskdef name="xmltask" classpathref="molgenis.classpath" classname="com.oopsconsultancy.xmltask.ant.XmlTask" />
<!-- clean out generated and build folders -->
<target name="clean">
<!-- remove and create generated folder -->
<delete includeEmptyDirs="true" failonerror="false">
<fileset dir="${build.molgenis.dir}" />
<fileset dir="${build.molgenis_apps.dir}" />
<fileset dir="${testng.report.dir}" />
<fileset dir="${war.dir}" />
</delete>
<mkdir dir="${build.molgenis.dir}" />
<mkdir dir="${build.molgenis_apps.dir}" />
<mkdir dir="${output_src}" />
<mkdir dir="${output_sql}" />
<mkdir dir="${testng.report.dir}" />
<mkdir dir="${war.dir}" />
</target>
<!-- generate based on properties file for this app_properties-->
<target name="generate" depends="update-eclipse">
<!-- clean generated folders -->
<delete includeEmptyDirs="true" failonerror="false">
<fileset dir="${output_src}" excludes=".gitignore" />
<fileset dir="${output_sql}" excludes=".gitignore" />
<fileset dir="${output_ccp}" excludes=".gitignore" />
</delete>
<mkdir dir="${output_src}" />
<mkdir dir="${output_sql}" />
<!-- check if the molgenis project is where it is to be expected, in ../molgenis/ -->
<condition property="dir.exists">
<available file="${molgenis.dir}" type="dir" />
</condition>
<!-- check if molgenis is compiled into ${build.dir}, otherwise compile now -->
<javac srcdir="${molgenis.dir}/src" destdir="${build.molgenis.dir}" nowarn="on" debug="true" includeantruntime="false">
<classpath refid="molgenis.classpath" />
</javac>
<!-- copy resources to build dir -->
<copy todir="${build.molgenis.dir}">
<fileset dir="${molgenis.dir}/src" includes="**/*.xml,**/*.properties,**/*.txt,**/*.ico,**/*.js,**/*.css,**/*.jpg,**/*.png,**/*.gif,**/*.ftl" />
</copy>
<!-- call the generator -->
<java maxmemory="512m" classname="org.molgenis.Molgenis" fork="yes" failonerror="true">
<classpath refid="molgenis.classpath" />
<classpath refid="app.class.path" />
<arg value="${app_properties}" />
</java>
<!-- copy all ftl files from module folders-->
<!-- concat all elements of app_path together separated by /**/*, -->
<pathconvert property="app_path" refid="app.class.path" pathsep="/**/*," dirsep="/">
<map from="${basedir}/" to="" />
</pathconvert>
<echo message="copying ftl files from ${app_path} to ${build.dir}" />
<fail unless="app_path">app.class.path is not set</fail>
<copy todir="${build.molgenis_apps.dir}">
<!-- watch the trailing /**/*.ftl"-->
<fileset dir="." includes="${app_path}/**/*" excludes="**/*.java" />
<!-- cut the two leading directories from path -->
<mapper type="regexp" from="^[-_a-zA-Z0-9]*[/\\][-_a-zA-Z0-9]*[/\\](.*)" to="\1" />
<!--cutdirsmapper dirs="2"/-->
</copy>
<!-- copy sql and other resources from generate sql -->
<copy todir="${build.molgenis_apps.dir}" verbose="true">
<fileset dir="${output_sql}" includes="**/*.sql" erroronmissingdir="false" />
<fileset dir="${output_src}" includes="**/*.xml,**/*.properties,**/*.txt,**/*.ico" />
</copy>
<!-- copy source.R from generated to build -->
<copy todir="${build.molgenis_apps.dir}" verbose="true">
<fileset dir="${output_src}" includes="**/*.R" />
</copy>
<!-- Copy persistence.xml to rigth location if it's specified in *.properties as persistence_xml_location-->
<antcall target="copy-persistence.xml" />
</target>
<target name="check_persistence_xml_locaton">
<echo>${persistence_xml_location}</echo>
<condition property="condition">
<isset property="persistence_xml_location" />
</condition>
</target>
<target name="updatedb">
<java classname="org.molgenis.Molgenis" fork="yes" failonerror="true">
<classpath refid="molgenis.classpath" />
<classpath refid="app.class.path" />
<arg value="${app_properties}" />
<arg value="--updatedb" />
</java>
</target>
<target name="updatedbfillmeta">
<java classname="org.molgenis.Molgenis" fork="yes" failonerror="true">
<classpath refid="molgenis.classpath" />
<classpath refid="app.class.path" />
<arg value="${app_properties}" />
<arg value="--updatedbfillmeta" />
</java>
</target>
<target name="copy-persistence.xml" depends="check_persistence_xml_locaton" if="condition">
<copy file="${persistence_xml_location}" todir="${build.molgenis_apps.dir}/META-INF/" overwrite="true" />
<echo>persistence.xml copied from ${persistence_xml_location} to ${build.molgenis_apps.dir}/META-INF/</echo>
</target>
<target name="compile">
<pathconvert property="app_src" refid="app.class.path" pathsep=":">
<map from="${basedir}/" to="" />
</pathconvert>
<fail unless="app_src">app.class.path is not set. Did you use the right build_xyz.xml?</fail>
<echo message="compile :${output_src}:${app_src}" />
<!-- compile the generated results, use fork to run it with its own memory settings -->
<!-- NB: under Windows, forking works only if the javac path is in your PATH variable -->
<javac fork="true" srcdir="${output_src}:${app_src}" destdir="${build.molgenis_apps.dir}" nowarn="on" memoryinitialsize="256m" memorymaximumsize="512m" debug="true" includeantruntime="false">
<classpath refid="molgenis.classpath" />
</javac>
</target>
<target name="test" depends="cb,findbugs" />
<target name="testng">
<!-- combine classpaths -->
<path id="combined.class.path">
<path refid="molgenis.classpath" />
<path refid="app.class.path" />
<path location="${output_src}" />
</path>
<!-- run the tests -->
<testng outputDir="${testng.report.dir}" haltOnFailure="true">
<xmlfileset dir="${build.molgenis_apps.dir}" includes="**/*testng.xml" />
<classpath location="${cb.instrument.dir}" />
<classpath refid="combined.class.path"/>
<classfileset dir="${build.molgenis.dir}" includes="**/*Test*.class" />
<sysproperty key="net.sourceforge.cobertura.datafile" value="${cb.file}" />
<jvmarg value="-noverify" />
<jvmarg value="-ea" />
<jvmarg value="-Xmx2048m" />
</testng>
<!--junitreport todir="${testng.report.dir}">
<fileset dir="${testng.report.dir}">
<include name="**/*.xml" />
</fileset>
<report format="noframes" todir="${testng.report.dir}" />
</junitreport-->
</target>
<!-- add robots.txt to webcontent folder, blocking all non-malicious webcrawlers - you can add this optionally to your build script! -->
<target name="add_robotstxt">
<echo>Adding WebContent/robots.txt to block webcrawlers..</echo>
<echo file="WebContent/robots.txt" append="false">User-agent: *${line.separator}Disallow: /${line.separator}</echo>
</target>
<!-- findbugs -->
<taskdef name="findbugs" classname="edu.umd.cs.findbugs.anttask.FindBugsTask" classpathref="molgenis.classpath"/>
<property name="findbugs.home" value="${molgenis.dir}/lib/findbugs-2.0.1" />
<target name="findbugs">
<pathconvert property="app_src" refid="app.class.path" pathsep=":">
<map from="${basedir}/" to="" />
</pathconvert>
<findbugs home="${findbugs.home}"
output="xml" outputFile="${basedir}/dist/findbugs.xml"
jvmargs="-Xms1024M -Xmx1024M ">
<!--
<sourcePath path="${molgenis.dir}/src" />
-->
<sourcePath path="${app_src}" />
<class location="${build.molgenis.dir}" />
<class location="${build.molgenis_apps.dir}" />
<auxclasspath>
<path refid="molgenis.classpath" />
</auxclasspath>
</findbugs>
</target>
<target name="findbugs.html">
<pathconvert property="app_src" refid="app.class.path" pathsep=":">
<map from="${basedir}/" to="" />
</pathconvert>
<findbugs home="${findbugs.home}"
output="html" outputFile="${basedir}/dist/findbugs.html"
jvmargs="-Xms1024M -Xmx1024M ">
<!--
<sourcePath path="${molgenis.dir}/src" />
-->
<sourcePath path="${app_src}" />
<class location="${build.molgenis.dir}" />
<class location="${build.molgenis_apps.dir}" />
<auxclasspath>
<path refid="molgenis.classpath" />
</auxclasspath>
</findbugs>
</target>
<!-- cobertura -->
<property name="cb.file" location="${basedir}/dist/cobertura.ser" />
<path id="cb.classpath">
<fileset dir="${molgenis.dir}/lib/cobertura">
<include name="*.jar" />
</fileset>
</path>
<target name="cb.init">
<!-- output directory -->
<property name="cb.report.dir" value="${basedir}/dist/cobertura" />
<!-- instrumentation directory -->
<property name="cb.instrument.dir" value="${cb.report.dir}/cobertura-instrumented-classes" />
<property name="cb.src.dir" value="${molgenis.dir}/src" />
<property name="cb.classes.dir" value="${build.molgenis.dir}" />
<taskdef classpathref="cb.classpath" resource="tasks.properties" />
</target>
<target name="cb" depends="cb.gen, cb.xml, cb.html">
<delete file="${cb.file}" />
<delete dir="${cb.instrument.dir}" />
</target>
<target name="cb.instrument">
<mkdir dir="${cb.report.dir}" />
<cobertura-instrument todir="${cb.instrument.dir}/"
datafile="${cb.file}">
<fileset dir="${cb.classes.dir}">
<include name="**/*.class" />
<exclude name="**/*Test.class" />
</fileset>
</cobertura-instrument>
</target>
<target name="init.cb.path">
<property name="test.cp" value="cb.test.cp" />
<path id="cb.test.cp">
<pathelement path="${cb.instrument.dir}" />
<pathelement path="${cb.classes.dir}" />
<path refid="molgenis.classpath" />
<path refid="app.class.path" />
<path refid="cb.classpath" />
</path>
</target>
<target name="cb.run" depends="init.cb.path, testng" />
<target name="cb.gen" depends="cb.init, cb.instrument, cb.run" />
<target name="cb.html">
<cobertura-report format="html"
destdir="${cb.report.dir}"
datafile="${cb.file}">
<fileset dir="${cb.src.dir}">
<include name="**/*.java" />
</fileset>
</cobertura-report>
</target>
<target name="cb.xml">
<cobertura-report format="xml"
destdir="${cb.report.dir}"
datafile="${cb.file}">
<fileset dir="${cb.src.dir}">
<include name="**/*.java" />
</fileset>
</cobertura-report>
</target>
<!--
<target name="javadoc">
<javadoc access="public" destdir="${dir.javadoc}" author="true" version="true" noindex="false" use="true" classpathref="classpath">
<fileset dir="handwritten/java" defaultexcludes="yes">
<include name="**/*.java" />
<exclude name="org/test/**/*.java" />
</fileset>
<fileset dir="generated/java" defaultexcludes="yes">
<include name="**/*.java" />
<exclude name="org/test/**/*.java" />
</fileset>
</javadoc>
</target>
<target name="makeWar" depends="compile">
the ant war task. with all resources in place, create the war file
<war destfile="${war.dir}/${war.name}" webxml="${webxml.dir}">
<classes dir="${build.dir}">
<include name="**/*" />
</classes>
<lib dir="../molgenis/lib">
<include name="**/*.jar" />
</lib>
<lib dir="WebContent/WEB-INF/lib">
<include name="**/*.jar" />
</lib>
<metainf dir="WebContent/META-INF">
</metainf>
</war>
</target>
-->
<target name="update-eclipse">
<echo>Restoring .classpath from template file ${basedir}/.classpath.template.xml</echo>
<copy file="${basedir}/.classpath.template.xml" tofile="${basedir}/.classpath" overwrite="true" />
<echo>Customizing .classpath for ${app_name} ...</echo>
<pathconvert property="app_xml" refid="app.class.path" pathsep=""/><classpathentry kind="src" path="">
<!--<map from="${user.dir}/" to="" />-->
<map from="${basedir}/" to="" />
</pathconvert>
<!-- add generated src as well -->
<property name="app_xml2" value="<classpathentry kind="src" path="${app_xml}"/>" />
<property name="app_xml3" value="${app_xml2}<classpathentry kind="src" path="${output_sql}"/><classpathentry kind="src" path="${output_src}"/>" />
<echo message="eclipse .classpath xml: ${app_xml3}" />
<xmltask source=".classpath" dest=".classpath" outputter="simple">
<remove path="classpath/classpathentry[@kind='src' and not(@exported)]" />
<insert path="classpath" position="under" xml="${app_xml3}" />
</xmltask>
<echo>Restoring .setting/sorg.eclipse.wst.common.component from template file ${basedir}/.settings/template.org.eclipse.wst.common.component</echo>
<copy file="${basedir}/.settings/template.org.eclipse.wst.common.component" tofile="${basedir}/.settings/org.eclipse.wst.common.component" overwrite="true" />
<copy file="${basedir}/.settings/template.jsdtscope" tofile="${basedir}/.settings/jsdtscope" overwrite="yes" />
<copy file="${basedir}/.settings/template.org.eclipse.jdt.core.prefs" tofile="${basedir}/.settings/org.eclipse.jdt.core.prefs" overwrite="yes" />
<copy file="${basedir}/.settings/template.org.eclipse.wst.common.project.facet.core.xml" tofile="${basedir}/.settings/org.eclipse.wst.common.project.facet.core.xml" overwrite="yes" />
<copy file="${basedir}/.project.template" tofile="${basedir}/.project" overwrite="yes" />
<!-- <wb-resource deploy-path="/WEB-INF/classes" source-path="/generated/src"/> -->
<pathconvert property="app_xml4" refid="app.class.path" pathsep=""/><wb-resource deploy-path="/WEB-INF/classes" source-path="">
<!--<map from="${user.dir}/" to="" />-->
<map from="${basedir}/" to="" />
</pathconvert>
<!-- add generated src as well -->
<property name="app_xml5" value="<wb-resource deploy-path="/WEB-INF/classes" source-path="${app_xml4}"/>" />
<property name="app_xml6" value="<wb-resource deploy-path="/WEB-INF/classes" source-path="${output_src}"/>${app_xml5}" />
<property name="app_xml7" value="<wb-resource deploy-path="/WEB-INF/classes" source-path="${output_sql}"/>${app_xml6}" />
<echo message="eclipse .classpath xml: ${app_xml5}" />
<xmltask source=".settings/template.org.eclipse.wst.common.component" dest=".settings/org.eclipse.wst.common.component" outputter="simple">
<insert path="project-modules/wb-module" position="under" xml="${app_xml7}" />
</xmltask>
<antcall target="download-jars"/>
</target>
<target name="generate-compile" depends="generate,compile" />
<target name="clean-generate-compile" depends="clean,generate,compile" />
<target name="clean-generate-compile-run" depends="clean,generate,compile,run" />
<target name="clean-generate-compile-test" depends="clean,generate,compile,test" />
<target name="clean-generate-compile-webtest" depends="clean,generate,compile,webtest" />
<target name="testcopy">
<pathconvert property="app_path" refid="app.class.path" pathsep="/**/*," dirsep="/">
<map from="${basedir}/" to="" />
</pathconvert>
<copy todir="${build.molgenis_apps.dir}">
<!-- watch the trailing /**/*.ftl"-->
<fileset dir="." includes="${app_path}/**/*" excludes="**/*.java" />
<fileset dir="${app_path}/handwritten/java/META-INF" />
<!-- cut the two leading directories from path -->
<mapper type="regexp" from="^[-_a-zA-Z0-9]*/[-_a-zA-Z0-9]*/(.*)" to="\1" />
<!--cutdirsmapper dirs="2"/-->
</copy>
<!-- copy sql and other resources from generate sql -->
<copy todir="${build.dir}" verbose="true">
<fileset dir="${output_sql}" includes="**/*.sql" />
<fileset dir="${output_src}" includes="**/*.xml,**/*.properties,**/*.txt,**/*.ico" />
</copy>
</target>
<target name="run" description="Start the application on port 8080">
<java maxmemory="512m" classname="boot.RunStandalone" fork="yes" failonerror="true">
<classpath>
<path refid="molgenis.classpath" />
<path location="${build.molgenis.dir}" />
<path location="${build.molgenis_apps.dir}" />
</classpath>
</java>
</target>
<target name="runOn" description="Start the application on a specified port, e.g. ant -f build_myapp.xml runOn -Dport=9000">
<java maxmemory="512m" classname="boot.RunStandalone" fork="yes" failonerror="true">
<arg value="${port}" />
<classpath>
<path refid="molgenis.classpath" />
<path location="${build.molgenis.dir}" />
<path location="${build.molgenis_apps.dir}" />
</classpath>
</java>
</target>
<target name="makeWar">
<war destfile="${war.dir}/${war.name}" webxml="${webxml.dir}">
<classes dir="${build.molgenis.dir}">
<include name="**/*" />
</classes>
<classes dir="${build.molgenis_apps.dir}">
<include name="**/*" />
</classes>
<fileset dir="WebContent">
<exclude name="WebContent/META-INF/*" />
<exclude name="WebContent/WEB-INF/*" />
<include name="**/*.*" />
</fileset>
<lib dir="../molgenis/lib">
<include name="**/*.jar" />
</lib>
<lib dir="WebContent/WEB-INF/lib">
<include name="**/*.jar" />
</lib>
<metainf dir="WebContent/META-INF">
</metainf>
</war>
</target>
<target name="webtest" description="Start the Selenium test">
<testng classpathref="molgenis.classpath" haltOnFailure="true">
<classfileset dir="${build.molgenis_apps.dir}" includes="**/${selenium_test_class}.class" />
</testng>
</target>
<target name="clean-generate-compile-war" depends="clean,generate,compile,makeWar" />
<target name="clean-generate-compile-updatedbfillmeta-run" depends="clean,generate,compile,updatedbfillmeta,run" />
<target name="download-jars">
<echo message="installing ivy.." />
<mkdir dir="WebContent/WEB-INF/lib" />
<get src="http://repo1.maven.org/maven2/org/apache/ivy/ivy/2.0.0/ivy-2.0.0.jar" dest="WebContent/WEB-INF/lib/ivy.jar" usetimestamp="true" />
<path id="ivy.lib.path">
<fileset dir="${lib.dir}" includes="ivy.jar"/>
</path>
<taskdef resource="org/apache/ivy/ant/antlib.xml" uri="antlib:org.apache.ivy.ant" classpathref="ivy.lib.path"/>
<echo message="resolving dependecies ..." />
<ivy:retrieve pattern="${lib.dir}/[artifact].[ext]" type="jar,bundle" sync="true" />
</target>
</project>