java/build.xml 1.21
1.21 2010/03/08 22:25:17 galt
fixing java paths now heather is gone
Index: java/build.xml
===================================================================
RCS file: /projects/compbio/cvsroot/kent/java/build.xml,v
retrieving revision 1.20
retrieving revision 1.21
diff -b -B -U 1000000 -r1.20 -r1.21
--- java/build.xml 22 Jan 2009 21:22:39 -0000 1.20
+++ java/build.xml 8 Mar 2010 22:25:17 -0000 1.21
@@ -1,220 +1,217 @@
<?xml version="1.0"?>
<!-- Build file for genome.ucsc.edu QA library directory -->
<project name="qa" default="baseBuild" basedir=".">
<target name="init">
<!-- directories -->
<property environment="env"/>
<!-- N.B. use MACHTYPE due since scripts ref files that maybe in diff locations on diff OSs -->
<property name="bin.dir" value="${env.HOME}/bin/${env.MACHTYPE}"/>
<property name="build.dir" value="."/>
<property name="src.dir" value="src"/>
<property name="doc.dir" value="/usr/local/apache/htdocs/qa"/>
<property name="classes.dir" value="${build.dir}/classes"/>
<!-- compile props -->
<property name="build.debug" value="on" />
<property name="build.optimize" value="off" />
<property name="build.compiler" value="modern" />
<property name="build.includes" value="**/*.java"/>
<property name="build.excludes" value="edu/ucsc/genome/qa/cgiCheck/HGNearCheck.java,edu/ucsc/genome/qa/lib/ErrorFile.java"/>
<!-- javadoc props -->
<property name="javadoc.packages" value="*"/>
<property name="javadoc.dir" value="${doc.dir}/api"/>
<!-- classpath fun -->
<property name="httpunit.jar" value="/usr/share/java/httpunit.jar"/>
- <property name="jtidy.jar" value="/cluster/home/heather/transfer/jtidy.jar"/>
- <!-- property name="jtidy.jar" value="/usr/share/java/jtidy.jar"/ -->
+ <property name="jtidy.jar" value="/cluster/bin/java/jtidy.jar"/>
<property name="rhino.jar" value="/usr/share/java/rhino.jar"/>
- <!-- property name="mysql.jar" value="/cluster/home/heather/java/mysql-connector-java-2.0.14-bin.jar"/ -->
- <!-- property name="mysql.jar" value="/usr/java/jdbc/mysql-connector-java-3.0.16-ga-bin.jar"/ -->
- <property name="mysql.jar" value="/cluster/home/heather/archive/mysql-connector-java-3.0.16-ga-bin.jar"/>
+ <property name="mysql.jar" value="/cluster/bin/java/mysql-connector-java-3.0.16-ga-bin.jar"/>
<path id="qa.classpath">
<pathelement location="${classes.dir}"/>
<pathelement path="${httpunit.jar}"/>
<pathelement path="${jtidy.jar}"/>
<pathelement path="${rhino.jar}"/>
<pathelement path="${mysql.jar}"/>
<pathelement path="${java.class.path}/"/>
</path>
</target>
<target name="build" depends="compile, generateWrappers, javaDoc, quickTest"/>
<target name="baseBuild" depends="compile, generateWrappers"/>
<target name="compile" depends="init"
description="Compile the source files">
<mkdir dir="${classes.dir}" />
<javac srcdir="${src.dir}"
destdir="${classes.dir}"
debug="${build.debug}"
optimize="${build.optimize}"
deprecation="${build.deprecation}"
includes="${build.includes}"
excludes="${build.excludes}"
classpathref="qa.classpath">
</javac>
</target>
<target name="javaDoc" depends="init"
description="Build the API documentation">
<mkdir dir="${javadoc.dir}"/>
<javadoc destdir="${javadoc.dir}"
package="true"
packagenames="${javadoc.packages}"
classpathref="qa.classpath" >
<sourcepath>
<pathelement path="${src.dir}"/>
</sourcepath>
</javadoc>
</target>
<target name="setQuickTest">
<property name="test.props"
value="src/edu/ucsc/genome/qa/cgiCheck/quick.props" />
</target>
<target name="setHourTest">
<property name="test.props"
value="src/edu/ucsc/genome/qa/cgiCheck/hour.props" />
</target>
<target name="setFullTest">
<property name="test.props"
value="src/edu/ucsc/genome/qa/cgiCheck/full.props" />
</target>
<target name="someTest">
<java classname="edu.ucsc.genome.qa.cgiCheck.TrackCheck"
classpathref="qa.classpath">
<arg value="${test.props}"/>
</java>
<java classname="edu.ucsc.genome.qa.cgiCheck.HGGeneCheck"
classpathref="qa.classpath">
<arg value="${test.props}"/>
</java>
<java classname="edu.ucsc.genome.qa.cgiCheck.PBGeneCheck"
classpathref="qa.classpath">
<arg value="${test.props}"/>
</java>
</target>
<target name="quickTest" depends="init,setQuickTest,someTest"
description="Quick test of the tests">
</target>
<target name="hourTest" depends="init,setHourTest,someTest"
description="Roughly hour long test of site">
</target>
<target name="fullTest" depends="init,setFullTest,someTest"
description="Overnight automated test of site.">
</target>
<target name="generateWrappers" depends="init"
description="Generate wrapper scripts for program classes.">
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.qa.cgiCheck"/>
<param name="progClass" value="HGGeneCheck"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.qa.cgiCheck"/>
<param name="progClass" value="HGNearCheck"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.qa.cgiCheck"/>
<param name="progClass" value="PBGeneCheck"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.qa.cgiCheck"/>
<param name="progClass" value="TrackCheck"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.qa.linkCheck"/>
<param name="progClass" value="LinkCheck"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.qa.monitor"/>
<param name="progClass" value="ApacheMonitor"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.qa.monitor"/>
<param name="progClass" value="ApacheReport"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.qa.monitor"/>
<param name="progClass" value="DatabaseMonitor"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.qa.monitor"/>
<param name="progClass" value="FileCheck"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.qa.filter"/>
<param name="progClass" value="ScoreFilter"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.util"/>
<param name="progClass" value="GetMaxCoord"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.util"/>
<param name="progClass" value="LoadQuality"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.util"/>
<param name="progClass" value="ScaffoldQuality"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.util"/>
<param name="progClass" value="LiftOverTest"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.util"/>
<param name="progClass" value="LiftOverRescue"/>
</antcall>
<antcall target="generateWrapper" inheritAll="yes" inheritRefs="yes">
<param name="progPkg" value="edu.ucsc.genome.util"/>
<param name="progClass" value="SequenceCheck"/>
</antcall>
</target>
<target name="clean" depends="init">
<delete dir="${classes.dir}" quiet="yes"/>
<delete dir="${javadoc.dir}" quiet="yes"/>
</target>
<!-- target to generate a run script for one of the program classes.
- call with `progPkg parameter set to package name and 'progClass'
- set to the class name, which is also the name of the of the
- wrapper to generate -->
<target name="generateWrapper"
description="Generate a wrapper script for a class.">
<property name="run.classpath" refid="qa.classpath"/>
<property name="wrapper" value="${bin.dir}/${progClass}"/>
<dependset>
<!-- rebuild if template or build.xml changes -->
<srcfilelist dir="misc" files="runTemplate.sh,build.xml"/>
<srcfilelist dir="." files=""/>
<targetfilelist dir="${bin.dir}" files="${progClass}"/>
</dependset>
<!-- should be able specify a filterset inside of the copy
- instead of seperately, however this didn't work
- in ant 1.5.4 -->
<copy file="misc/runTemplate.sh"
tofile="${wrapper}" overwrite="yes"/>
<replace file="${wrapper}" token="@JAVA_HOME@" value="${java.home}"/>
<replace file="${wrapper}" token="@CLASSPATH@" value="${run.classpath}"/>
<replace file="${wrapper}" token="@PROG_CLASS@" value="${progPkg}.${progClass}"/>
<chmod file="${wrapper}" perm="a+x"/>
</target>
</project>