gatk-3.8/packages/Queue.xml

<?xml version="1.0" encoding="UTF-8"?>
<package name="Queue">
    <version file="StingText.properties" property="org.broadinstitute.sting.queue.version" />
    <executable name="Queue">
        <main-class name="org.broadinstitute.sting.queue.QCommandLine" />
        <resource-bundle file="StingText.properties" />
        <dependencies>
            <!-- Queue -->
            <package name="org.broadinstitute.sting.queue.**" />

            <!-- Pipeline + Utils -->
            <package name="org.broadinstitute.sting.datasources.pipeline.**" />
            <package name="org.broadinstitute.sting.utils.yaml.**" />

            <!-- Scala -->
            <package name="scala.**" />

            <!-- JNA, including embedded native libraries -->
            <dir name="com/sun/jna" />
        </dependencies>
    </executable>
    <release>
        <executable directory="/humgen/gsa-hpprojects/Queue/bin" symlink="current" />
        <archive directory="/web/ftp/pub/gsa/Queue" symlink="Queue-latest.tar.bz2" />
    </release>
</package>
Added Queue packages, which must be run with 'ant queue package'. To assist with the above no longer removing jars during a new build, so 'ant queue dist' will still have the Queue.jar. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4020 348d0f76-0448-11de-a6fe-93d51630548a 2010-08-13 01:45:53 +08:00			`<?xml version="1.0" encoding="UTF-8"?>`
			`<package name="Queue">`
Queue now uses its own version instead of the gatk version. Added a Queue release directory. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4050 348d0f76-0448-11de-a6fe-93d51630548a 2010-08-18 03:34:23 +08:00			`<version file="StingText.properties" property="org.broadinstitute.sting.queue.version" />`
Added Queue packages, which must be run with 'ant queue package'. To assist with the above no longer removing jars during a new build, so 'ant queue dist' will still have the Queue.jar. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4020 348d0f76-0448-11de-a6fe-93d51630548a 2010-08-13 01:45:53 +08:00			`<executable name="Queue">`
			`<main-class name="org.broadinstitute.sting.queue.QCommandLine" />`
			`<resource-bundle file="StingText.properties" />`
			`<dependencies>`
			`<!-- Queue -->`
Simplified the Queue package definition so that BCEL doesn't miss any dependent queue classes or those loaded via reflection. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4859 348d0f76-0448-11de-a6fe-93d51630548a 2010-12-17 02:17:48 +08:00			`<package name="org.broadinstitute.sting.queue.**" />`
Enabling support for any scala used in QScripts. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4052 348d0f76-0448-11de-a6fe-93d51630548a 2010-08-18 06:05:56 +08:00
Updated the Queue GATK generator and packaging to include more dependencies for fullCallingPipeline.q. Set the -bigMemQueue in the FullCallingPipelineTest to GSA to avoid waiting for the week queue when it is busy. Fixed the package definition of PipelineTest so that scalac won't recompile it every time. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4755 348d0f76-0448-11de-a6fe-93d51630548a 2010-11-30 23:29:40 +08:00			`<!-- Pipeline + Utils -->`
			`<package name="org.broadinstitute.sting.datasources.pipeline.**" />`
			`<package name="org.broadinstitute.sting.utils.yaml.**" />`

Enabling support for any scala used in QScripts. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4052 348d0f76-0448-11de-a6fe-93d51630548a 2010-08-18 06:05:56 +08:00			`<!-- Scala -->`
			`<package name="scala.**" />`
Adding the native jna support libraries from the jna.jar to the Queue package jar. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4965 348d0f76-0448-11de-a6fe-93d51630548a 2011-01-08 18:48:30 +08:00
			`<!-- JNA, including embedded native libraries -->`
			`<dir name="com/sun/jna" />`
Added Queue packages, which must be run with 'ant queue package'. To assist with the above no longer removing jars during a new build, so 'ant queue dist' will still have the Queue.jar. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4020 348d0f76-0448-11de-a6fe-93d51630548a 2010-08-13 01:45:53 +08:00			`</dependencies>`
			`</executable>`
Queue now uses its own version instead of the gatk version. Added a Queue release directory. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4050 348d0f76-0448-11de-a6fe-93d51630548a 2010-08-18 03:34:23 +08:00			`<release>`
			`<executable directory="/humgen/gsa-hpprojects/Queue/bin" symlink="current" />`
			`<archive directory="/web/ftp/pub/gsa/Queue" symlink="Queue-latest.tar.bz2" />`
			`</release>`
Added Queue packages, which must be run with 'ant queue package'. To assist with the above no longer removing jars during a new build, so 'ant queue dist' will still have the Queue.jar. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4020 348d0f76-0448-11de-a6fe-93d51630548a 2010-08-13 01:45:53 +08:00			`</package>`