<?xml version="1.0" encoding="UTF-8"?>
-<project default="jabaws" name="Build Java Bioinformatics Analysis Web Services" basedir=".">
+<project default="build-all" name="Build Java Bioinformatics Analysis Web Services" basedir=".">
- <property name="LD_LIBRARY_PATH" value="/gridware/sge/lib/lx24-amd64"/>
+ <property name="LD_LIBRARY_PATH" value="/gridware/sge/lib/lx-amd64"/>
+ <property name="JAVA_TARGET" value="1.7"/>
<!-- Distributive file names-->
<property name="distdir" value="website/archive"/>
<!-- dependencies on other compbio projects -->
<property name="compbio-annotation" value="compbio-annotations-1.0.jar"/>
<property name="compbio-util" value="compbio-util-1.4.jar"/>
- <property name="compbio-ga" value="compbio-ga-1.0.jar"/>
+ <property name="compbio-ga" value="compbio-ga-1.1.jar"/>
<!-- products -->
- <property name="jabaws_version" value="2.1.0"/>
+ <property name="jabaws_version" value="2.2.0"/>
+ <property name="core" value="${distdir}/jabaws-core-${jabaws_version}.jar"/>
+ <property name="core-src" value="${distdir}/jabaws-core-src-${jabaws_version}.jar"/>
<property name="datamodel" value="${distdir}/datamodel-${jabaws_version}.jar"/>
<property name="datamodel-src" value="${distdir}/datamodel-src-${jabaws_version}.jar"/>
<property name="min-jabaws-client" value="${distdir}/min-jabaws-client-${jabaws_version}.jar"/>
<property name="min-jabaws-client-nolog" value="${distdir}/min-jabaws-client-nolog-${jabaws_version}.jar"/>
<property name="jabaws-client-src" value="${distdir}/jabaws-client-src-${jabaws_version}.jar"/>
- <property name="aacon-ws-client" value="${distdir}/aacon-ws-client.jar"/>
<property name="full-jabaws-client" value="${distdir}/full-jabaws-client-${jabaws_version}.jar"/>
<property name="jabaws-source-jar" value="${distdir}/jabaws-src-${jabaws_version}.jar"/>
<property name="full-jabaws-client-pack" value="${distdir}/full-jabaws-client-${jabaws_version}-pack.zip"/>
<property name="jabaws" value="${distdir}/jabaws.war"/>
- <!-- TODO
- <property name="jabaws-dundee" value="${distdir}/jabaws-dundee.war"/>
- -->
<property name="jabaws-no-binaries" value="${distdir}/jabaws-no-binaries.war"/>
<property name="binaries" value="${distdir}/binaries.zip"/>
<property name="jabaws-devel-web" value="${distdir}/jabaws-devel-website.zip"/>
<!-- copy files to class path-->
<copy file="${basedir}/log/log4j.properties" tofile="${classes}/log4j.properties" />
<!-- Complile the datamodel first -->
- <javac srcdir="${basedir}/datamodel" destdir="${classes}" target="1.6"
- source="1.6" debug="on" encoding="UTF-8" verbose="false" nowarn="true" >
+ <javac srcdir="${basedir}/datamodel" destdir="${classes}" target="${JAVA_TARGET}" debug="on" encoding="UTF-8" verbose="false" nowarn="true" >
<compilerarg value="-Xlint:unchecked"/>
<classpath refid="project.classpath" />
</javac>
<!-- Complile the engines -->
- <javac srcdir="${basedir}/engine" destdir="${classes}" target="1.6"
- source="1.6" debug="on" encoding="UTF-8" verbose="false" nowarn="true" >
+ <javac srcdir="${basedir}/engine" destdir="${classes}" target="${JAVA_TARGET}" debug="on" encoding="UTF-8" verbose="false" nowarn="true" >
<compilerarg value="-Xlint:unchecked"/>
<classpath refid="project.classpath" />
</javac>
<!-- Complile the runners -->
- <javac srcdir="${basedir}/runner" destdir="${classes}" target="1.6"
- source="1.6" debug="on" encoding="UTF-8" verbose="false" nowarn="true" >
+ <javac srcdir="${basedir}/runner" destdir="${classes}" target="${JAVA_TARGET}" debug="on" encoding="UTF-8" verbose="false" nowarn="true" >
<compilerarg value="-Xlint:unchecked"/>
<classpath refid="project.classpath" />
</javac>
<!-- Complile the webservices -->
- <javac srcdir="${basedir}/webservices" destdir="${classes}" target="1.6"
- source="1.6" debug="on" encoding="UTF-8" verbose="false" nowarn="true" >
+ <javac srcdir="${basedir}/webservices" destdir="${classes}" target="${JAVA_TARGET}" debug="on" encoding="UTF-8" verbose="false" nowarn="true" >
<compilerarg value="-Xlint:unchecked"/>
<classpath refid="project.classpath" />
</javac>
<!-- Complile the tests -->
- <javac srcdir="${basedir}/testsrc" destdir="${classes}" target="1.6"
- source="1.6" debug="on" encoding="UTF-8" verbose="false" nowarn="true" >
+ <javac srcdir="${basedir}/testsrc" destdir="${classes}" target="${JAVA_TARGET}" debug="on" encoding="UTF-8" verbose="false" nowarn="true" >
<compilerarg value="-Xlint:unchecked"/>
<classpath refid="project.classpath" />
<classpath refid="test.classpath" />
<!-- copy files to class path-->
<copy file="${basedir}/log/log4j.properties" tofile="${classes}/log4j.properties" />
<!-- Complile the datamodel first -->
- <javac srcdir="${basedir}/datamodel" destdir="${classes}" target="1.6" source="1.6" debug="off" optimize="on" encoding="UTF-8" verbose="false" nowarn="true">
+ <javac srcdir="${basedir}/datamodel" destdir="${classes}" target="${JAVA_TARGET}" debug="off" optimize="on" encoding="UTF-8" verbose="false" nowarn="true">
<compilerarg value="-Xlint:-unchecked" />
<classpath refid="project.classpath" />
</javac>
<!-- Complile the engines -->
- <javac srcdir="${basedir}/engine" destdir="${classes}" target="1.6" source="1.6" debug="off" optimize="on" encoding="UTF-8" verbose="false" nowarn="true">
- <compilerarg value="-Xlint:-all" />
+ <javac srcdir="${basedir}/engine" destdir="${classes}" target="${JAVA_TARGET}" debug="off" optimize="on" encoding="UTF-8" verbose="false" nowarn="true">
+ <compilerarg value="-Xlint:all" />
<compilerarg value="-Xlint:-unchecked" />
<classpath refid="project.classpath" />
</javac>
<!-- Complile the runners -->
- <javac srcdir="${basedir}/runner" destdir="${classes}" target="1.6" source="1.6" debug="off" optimize="on" encoding="UTF-8" verbose="false" nowarn="true">
+ <javac srcdir="${basedir}/runner" destdir="${classes}" target="${JAVA_TARGET}" debug="off" optimize="on" encoding="UTF-8" verbose="false" nowarn="true">
<compilerarg value="-Xlint:-unchecked" />
<classpath refid="project.classpath" />
</javac>
<!-- Complile the webservices -->
- <javac srcdir="${basedir}/webservices" destdir="${classes}" target="1.6" source="1.6" debug="off" optimize="on" encoding="UTF-8" verbose="false" nowarn="true">
+ <javac srcdir="${basedir}/webservices" destdir="${classes}" target="${JAVA_TARGET}" debug="off" optimize="on" encoding="UTF-8" verbose="false" nowarn="true">
<compilerarg value="-Xlint:-unchecked" />
<classpath refid="project.classpath" />
</javac>
<target name="datamodel-jar" depends="compile" description="Pack data model classes">
<echo>Jar file: Minimal WS client jar</echo>
- <delete file="${basedir}/${datamodel}">
- </delete>
+ <delete file="${basedir}/${datamodel}"></delete>
<jar jarfile="${basedir}/${datamodel}">
<zipgroupfileset excludes="META-INF/*.SF" dir="${web.lib.path}" >
<include name="${compbio-util}"/>
</jar>
</target>
+ <target name="datamodel-source-jar" depends="compile" description="Pack java sources">
+ <delete file="${datamodel-src}"></delete>
+ <jar jarfile="${datamodel-src}">
+ <fileset dir="${basedir}/datamodel">
+ <include name="**"/>
+ </fileset>
+ <zipgroupfileset excludes="META-INF/*.MF" dir="${lib.path}/src">
+ <include name="**"/>
+ </zipgroupfileset>
+ <manifest>
+ <attribute name="Built-By" value="${author}" />
+ <attribute name="Implementation-Title" value="${product} Datamodel Source Code Archive" />
+ <attribute name="Implementation-Vendor" value="${author}" />
+ <attribute name="Implementation-URL" value="${project.url}" />
+ </manifest>
+ </jar>
+ </target>
+
+ <target name="core-jar" depends="compile" description="Pack jabaws core classes">
+ <echo>Jar file: JABAWS core jar</echo>
+ <delete file="${basedir}/${core}"></delete>
+ <jar jarfile="${basedir}/${core}">
+ <zipgroupfileset excludes="META-INF/*.SF" dir="${web.lib.path}" >
+ <include name="${compbio-util}"/>
+ <include name="${compbio-annotation}"/>
+ </zipgroupfileset>
+ <fileset refid="fullclient"/>
+ <manifest>
+ <attribute name="Built-By" value="${author}" />
+ <attribute name="Class-Path" value="." />
+ <attribute name="Implementation-Title" value="JABAWS Core for ${product}" />
+ <attribute name="Implementation-Vendor" value="${author}" />
+ <attribute name="Implementation-URL" value="${project.url}" />
+ </manifest>
+ </jar>
+ </target>
+
+ <target name="core-source-jar" depends="compile" description="Pack jabaws core java sources">
+ <delete file="${core-src}"></delete>
+ <jar jarfile="${core-src}">
+ <fileset dir="${basedir}/datamodel">
+ <include name="**"/>
+ </fileset>
+ <fileset dir="${basedir}/engine">
+ <include name="**"/>
+ </fileset>
+ <zipgroupfileset excludes="META-INF/*.MF" dir="${lib.path}/src">
+ <include name="**"/>
+ </zipgroupfileset>
+ <manifest>
+ <attribute name="Built-By" value="${author}" />
+ <attribute name="Implementation-Title" value="${product} JABAWS Core Source Code Archive" />
+ <attribute name="Implementation-Vendor" value="${author}" />
+ <attribute name="Implementation-URL" value="${project.url}" />
+ </manifest>
+ </jar>
+ </target>
+
<target name="jabaws-client-src-jar" depends="datamodel-source-jar" description="Pack metadata, data model, WS interfaces, a simple ws client class">
<echo>Jar file: JABAWS client source</echo>
<delete file="${jabaws-client-src}">
</jar>
</target>
- <target name="aacon-ws-client-jar" depends="compile, datamodel-jar" description="Pack metadata, data model, WS interfaces, a simple ws client class">
- <echo>Jar file: AAConWS client jar</echo>
- <delete file="${basedir}/${aacon-ws-client}">
- </delete>
- <jar jarfile="${basedir}/${aacon-ws-client}">
- <zipgroupfileset excludes="META-INF/*.SF" dir="" includes="${datamodel}" />
- <fileset dir="${basedir}/WEB-INF/classes/">
- <!-- This will include JAXWS artifacts. Alternatively they can be generated on the fly. -->
- <include name="compbio/data/msa/**"/>
- <include name="compbio/ws/client/**"/>
- </fileset>
- <manifest>
- <attribute name="Built-By" value="${author}" />
- <attribute name="Main-Class" value="compbio.ws.client.AAConClient" />
- <attribute name="Class-Path" value="." />
- <attribute name="Implementation-Title" value="AACon Client" />
- <attribute name="Implementation-Vendor" value="${author}" />
- <attribute name="Implementation-URL" value="http://www.compbio.dundee.ac.uk/aacon" />
- </manifest>
- </jar>
- </target>
-
<target name="full-jabaws-client" depends="full-jabaws-client-jar, pack-binaries" description="Pack binaries with sources and configuration files">
<echo>Packing binaries, and configuration files</echo>
<zip destfile="${full-jabaws-client-pack}" >
</jar>
</target>
- <target name="datamodel-source-jar" depends="compile" description="Pack java sources">
- <delete file="${datamodel-src}">
- </delete>
- <jar jarfile="${datamodel-src}">
- <fileset dir="${basedir}/datamodel">
- <include name="**"/>
- </fileset>
- <zipgroupfileset excludes="META-INF/*.MF" dir="${lib.path}/src">
- <include name="**"/>
- </zipgroupfileset>
- <manifest>
- <attribute name="Built-By" value="${author}" />
- <attribute name="Implementation-Title" value="${product} Datamodel Source Code Archive" />
- <attribute name="Implementation-Vendor" value="${author}" />
- <attribute name="Implementation-URL" value="${project.url}" />
- </manifest>
- </jar>
- </target>
-
<target name="full-jabaws-jar" depends="compile" description="Pack datamodel, engine, runners, configuration, binaries and webservices">
<echo>Jar file: Full WS client jar</echo>
<delete file="${full-jabaws-client}">
<include name="lib/*"/>
</zipfileset>
<zipfileset dir="${basedir}/ExecutionStatistic" prefix="ExecutionStatistic" />
- <zipfileset dir="${basedir}/statpages" prefix="statpages" />
+ <zipfileset dir="${basedir}/website/statpages" prefix="statpages" />
<zipfileset dir="${basedir}/jobsout" prefix="jobsout" excludes="**/*"/>
<zipfileset dir="conf" prefix="conf" >
<exclude name="**/temp/**"/>
</zipfileset>
<!-- Add JABAWS web site apart from the binary archive -->
<zipfileset dir="${basedir}/website" excludes="archive/**, devel*.html, tests/**, template.html"/>
+ <!-- Add JABAWS docs apart from the contents of _build -->
+ <zipfileset dir="${basedir}/docs" excludes="_build/**"/>
<zipfileset dir="." includes="${full-jabaws-client}" fullpath="WEB-INF/lib/jabaws-client.jar"/>
<!-- Put a copy of log4j configuration file where it can be used -->
<zipfileset dir="log" includes="log4j.properties" prefix="WEB-INF/classes"/>
<zip destfile="${jabaws-devel-web}" whenempty="create">
<!-- Add JABAWS web site apart from the binary archive -->
<zipfileset dir="${basedir}/website" excludes="template.html, download.html, index.html, manual.html, howto.html, archive/**, prog_docs/**"/>
+ <!-- Add JABAWS docs apart from the contents of _build -->
+ <zipfileset dir="${basedir}/docs" excludes="_build/**"/>
</zip>
</target>
</zip>
</target>
- <target name="build-all" depends="full-jabaws-client, minimal-jabaws-client-jar, jabaws-no-binaries, jabaws-complete, datamodel-jar, datamodel-source-jar, source-jar, jabaws-client-src-jar" description="Build-all the distributives"/>
+ <target name="build-all" depends="full-jabaws-client, minimal-jabaws-client-jar, jabaws-no-binaries, jabaws-complete, datamodel-jar, datamodel-source-jar, core-jar, core-source-jar, source-jar, jabaws-client-src-jar" description="Build-all the distributives"/>
<!-- This task does not really depends on compile, but it is better to make sure that the code is sound -->
<target name="archive-project" description="Pack everything in the project for those who do not have access to SVN" depends="compile">
</zip>
</target>
+<!-- ####################################################################################################################################### -->
<!-- Test targets -->
<taskdef name="testNG" classname="org.testng.TestNGAntTask">
<classpath refid="test.classpath">
</testNG>
</target>
+ <target name="Test_webservices" depends="compile_with_debug">
+ <delete file="${activity.log}"/>
+ <testNG groups="webservices" haltonfailure="true" verbose="3" enableassert="true" >
+ <jvmarg value="-server" />
+ <jvmarg value="-enableassertions" />
+ <jvmarg value="-Xms1024m" />
+ <jvmarg value="-Xmx1024m" />
+ <classfileset dir="${classes}" includes="**/*.class" />
+ <env key="LD_LIBRARY_PATH" value="${LD_LIBRARY_PATH}"/>
+ <classpath refid="test.classpath" />
+ <classpath refid="project.classpath" />
+ <sysproperty key="TestingDataPath" value="${data.src}"/>
+ </testNG>
+ </target>
+
<target name="All_cluster_independent_windows_only_tests" depends="compile_with_debug">
<delete file="${activity.log}" failonerror="false"/>
<testNG excludedgroups="cluster, non_windows" haltonfailure="true" verbose="3" enableassert="true" >
<sysproperty key="TestingDataPath" value="${data.src}"/>
</testNG>
</target>
+
+ <target name="TestAll" depends="compile_with_debug">
+ <delete file="${activity.log}"/>
+ <testNG haltonfailure="true" enableassert="true" verbose="3" >
+ <jvmarg value="-server" />
+ <jvmarg value="-enableassertions" />
+ <jvmarg value="-Xms1024m" />
+ <jvmarg value="-Xmx1024m" />
+ <classfileset dir="${classes}" includes="**/*.class" />
+ <env key="LD_LIBRARY_PATH" value="${LD_LIBRARY_PATH}"/>
+ <classpath refid="test.classpath" />
+ <classpath refid="project.classpath" />
+ <sysproperty key="TestingDataPath" value="${data.src}"/>
+ </testNG>
+ </target>
+
</project>
git://source.jalview.org / jabaws.git / blobdiff