Author: mcreech
Date: 2011-05-19 10:07:24 -0700 (Thu, 19 May 2011)
New Revision: 25492
Removed:
csplugins/trunk/agilent/creech/HyperEdge/build.properties-saved
csplugins/trunk/agilent/creech/HyperEdge/build.xml-saved
csplugins/trunk/agilent/creech/HyperEdge/src/cytoscape/hyperedge/impl/
Log:
v2.63
Deleted: csplugins/trunk/agilent/creech/HyperEdge/build.properties-saved
===================================================================
--- csplugins/trunk/agilent/creech/HyperEdge/build.properties-saved
2011-05-19 16:23:07 UTC (rev 25491)
+++ csplugins/trunk/agilent/creech/HyperEdge/build.properties-saved
2011-05-19 17:07:24 UTC (rev 25492)
@@ -1,36 +0,0 @@
-# This file defines user preferences for the ANT build process for
-# this library.
-
-# Should an Internet browser present the test report after tests
-# are run? If 'yes', 'on', or 'true', present the tests.
-browse.test.report=yes
-
-# Should we copy jars created to the repository, or keep local in our
-# 'release' directory? If 'yes', 'on', or 'true', copy to repository.
-repository.release=yes
-
-# Should plugins that are dependent on a given library be updated when
-# that library changes in the repository? If 'yes', 'on', or 'true',
-# udpate plugin packages when library changes. Otherwise leave plugins
-# alone. This flag is only relevant when repository.release=yes.
-update.dependent.plugins=no
-
-# Place any local libraries (.jar files) required for compiling this
-# library:
-# local.compile.libs=
-
-# Place any local libraries (.jar files) required for executing this
-# library (do not repeat compile-time libraries):
-# local.run.libs=
-
-# Place any repository libraries (.jar files) required for compiling this
-# library:
-repository.compile.libs=cytoscape/cytoscape.jar;cytoscape/giny.jar;cytoscape/jaxb-api.jar;junit.jar;lsiutils.jar
-
-# Place any repository libraries (.jar files) required for executing this
-# library (do not repeat compile-time libraries):
-repository.run.libs=cytoscape/cytoscape-cruft-obo.jar;;cytoscape/cytoscape-geom-spacial.jar;cytoscape/cytoscape-geom-rtree.jar;cytoscape/cytoscape-graph-dynamic.jar;cytoscape/cytoscape-graph-fixed.jar;cytoscape/cytoscape-render-export.jar;cytoscape/cytoscape-render-immed.jar;cytoscape/cytoscape-render-stateful.jar;cytoscape/cytoscape-task.jar;cytoscape/cytoscape-util-intr.jar;cytoscape/ding.jar;cytoscape/fing.jar;cytoscape/jdom-1.0.jar;cytoscape/jaxb-impl.jar;cytoscape/jsr173_1.0_api.jar;cytoscape/phoebe.jar;cytoscape/tclib.jar
-
-# Place any repository libraries (.jar files) to be used in creating
-# the plugin:
-repository.plugin.libs=lsiutils.jar
\ No newline at end of file
Deleted: csplugins/trunk/agilent/creech/HyperEdge/build.xml-saved
===================================================================
--- csplugins/trunk/agilent/creech/HyperEdge/build.xml-saved 2011-05-19
16:23:07 UTC (rev 25491)
+++ csplugins/trunk/agilent/creech/HyperEdge/build.xml-saved 2011-05-19
17:07:24 UTC (rev 25492)
@@ -1,185 +0,0 @@
-<?xml version="1.0"?>
-<project name="HyperEdge" default="jar-middleware" basedir=".">
- <!-- TO USE THIS BUILD SCRIPT:
- 1) You need to pass in the definition of 'cytoscape.dir'. For example:
- -Dcytoscape.dir=../Cytoscape-2.8.1-x64
- 2) Optional: pass in 'hee.jarlib.dir' with the location of
- the HyperEdgeEditor's HyperEdge jar to have HyperEdgeEditor
- updated.
- NOTE: Until it is OK for the HyperEdge to be treated as a separate
- plugin, don't use the 'jar' target. The problem is that plugin
- dependencies in between the HyperEdgeEditor and HyperEdge
- plugins. For now, the HyperEdgeEditor subsumes HyperEdge. -->
-
- <!-- directory definitions -->
- <property name="root.dir" value="."/>
- <property name="src.dir" value="${root.dir}/src"/>
- <property name="doc.dir" value="${root.dir}/doc"/>
- <property name="jarlib.dir" value="${root.dir}/jarlib"/>
- <property name="build.dir" value="${root.dir}/build"/>
- <property name="build.classes.dir" value="${build.dir}/classes"/>
- <property name="apidocs.dir" location="${build.dir}/api-docs" />
-
- <property name="cytoscape.lib.dir" value = "${cytoscape.dir}/lib"/>
- <!-- <property name="hee.jarlib.dir"
location="../HyperEdgeEditor/jarlib" /> -->
- <property name="test.dir" location="${build.dir}/test" />
- <property name="test.subdir" value="cytoscape/hyperedge/unittest" />
- <property name="test.reports.dir" location="${test.dir}/reports" />
- <property name="test.data.dir" location="${test.dir}/data" />
- <property name="test.classes.root.dir" location="${build.classes.dir}"
/>
-
- <!-- plugin definitions -->
- <property name="plugin.name" value="${ant.project.name}" />
- <property name="plugin.loc" value = "${build.dir}/${plugin.name}.jar"/>
-
- <!-- compiler options -->
- <property name="build.compiler" value="modern"/>
-
- <!-- classpath with all lib, cytoscape, and cytoscape lib classes -->
- <path id="plugin.classpath">
- <fileset dir="${jarlib.dir}">
- <include name="*.jar"/>
- </fileset>
- <fileset dir="${cytoscape.dir}">
- <include name="*.jar"/>
- </fileset>
- </path>
-
- <!-- Target to create the build directories prior to compilation -->
- <target name="prepare">
- <mkdir dir="${build.dir}"/>
- <mkdir dir="${build.classes.dir}" />
- <mkdir dir="${test.dir}" />
- <mkdir dir="${test.data.dir}" />
- <mkdir dir="${test.reports.dir}" />
- <echo message="Finished prepare." />
- </target>
-
- <!-- Target to clean out all directories -->
- <target name="clean"
- description="Removes all generated jars, test, and class files.
Leaves API docs.">
- <!-- would be better to delete build.dir excluding the api-docs
directory,
- but can't get that to work: -->
- <delete dir="${build.classes.dir}" />
- <delete dir="${plugin.loc}" />
- <delete dir="${test.dir}" />
- </target>
-
- <target name="clean-docs" description="Remove all generated java API
docs.">
- <delete dir="${apidocs.dir}" />
- </target>
-
- <!-- Target to create the javadoc information -->
- <target name="doc"
- depends="clean-docs">
- <mkdir dir="${apidocs.dir}"/>
- <javadoc destdir="${apidocs.dir}"
- classpathref="plugin.classpath"
- Windowtitle="${plugin.name} API Docs"
- header="${plugin.name}"
- Private="yes">
- <fileset dir="${src.dir}" defaultexcludes="yes">
- <exclude name="${test.subdir}/**" />
- <include name="**/*.java" />
- </fileset>
- <doctitle>${plugin.name} API Docs</doctitle>
- </javadoc>
- </target>
-
-
- <target name="test" depends="compile" description="compile code and run
all tests and create a test report.">
- <echo message="test.classes.root.dir =
${test.classes.root.dir}" />
-
- <path id="test.classpath">
- <path refid="plugin.classpath" />
- <pathelement location="${build.classes.dir}" />
- </path>
- <junit printsummary="false" errorProperty="test.failed"
failureProperty="test.failed">
- <!-- junit requires a different classpath then standard
compile: -->
- <classpath refid="test.classpath" />
- <formatter type="brief" usefile="false" />
- <formatter type="xml" />
- <batchtest todir="${test.data.dir}">
- <fileset dir="${test.classes.root.dir}"
includes="**/${test.subdir}/*Test.class" />
- </batchtest>
- </junit>
- <!-- create the nice HTML, browsable report of test results: -->
- <junitreport todir="${test.data.dir}">
- <fileset dir="${test.data.dir}">
- <include name="TEST-*.xml" />
- </fileset>
- <report format="frames" todir="${test.reports.dir}" />
- </junitreport>
- <antcall target="display-test-report" />
- <fail message="Test failed. Check report in
${test.reports.dir}/index.html." if="test.failed" />
- <echo message="Tests passed. Check report in
${test.reports.dir}/index.html." />
- </target>
-
- <target name="display-test-report" description="Display test results in
a browser when desired." if="display-browser">
- <exec executable="cmd">
- <arg line="/c start ${test.reports.dir}/index.html" />
- </exec>
- </target>
-
- <!-- Target to compile all Plug In Code -->
- <target name="compile"
- depends="prepare"
- description="Compiles all PlugIn source code.">
- <javac debug="Yes"
- srcdir="${src.dir}"
- destdir="${build.classes.dir}"
- deprecation="true"
- classpathref="plugin.classpath"/>
- <echo message="Finished compile." />
- </target>
-
- <target name="add-data-files">
- <!-- Don't allow HyperEdge to be its own plugin right now: -->
- <!-- <copy todir="${build.classes.dir}/cytoscape/hyperedge"
preservelastmodified="true" file="plugin.props" /> -->
- </target>
-
- <!-- Create PlugIn Jar File -->
- <!-- NOTE: Until it is OK for the HyperEdgeEditor to be
- treated as a separate plugin, don't use jar. The problem is
- plugin dependencies between the HyperEdgeEditor and HyperEdge
- plugins. For now, the HyperEdgeEditor subsumes HyperEdge. -->
- <target name="jar"
- depends="clean,compile,add-data-files"
- description="Compile code and create plugin ${plugin.name}
jar.">
- <unjar dest="${build.dir}">
- <fileset dir="${jarlib.dir}">
- <include name="*.jar"/>
- </fileset>
- </unjar>
- <jar destfile="${plugin.loc}">
- <fileset dir="${build.classes.dir}">
- <!-- skip items from the test directory: -->
- <exclude name="${test.subdir}/" />
- </fileset>
- <!-- <manifest> -->
- <!-- <attribute name="Cytoscape-Plugin" -->
- <!-- value="cytoscape.hyperedge.HyperEdgePlugin"/>
-->
- <!-- </manifest> -->
- </jar>
- </target>
-
- <target name="jar-middleware" depends="clean,compile,add-data-files"
description="Create only a jar of the compiled code--don't include any other
needed libraries.">
- <jar destfile="${plugin.loc}">
- <fileset dir="${build.classes.dir}">
- <!-- skip items from the test directory: -->
- <exclude name="${test.subdir}/" />
- <exclude
name="cytoscape/hyperedge/plugin.props" />
- </fileset>
- </jar>
- <echo message="${lib.loc} is now complete." />
- <antcall target="copy-jar-to-hee" />
- </target>
-
-
- <target name="all"
- depends="clean,jar-middleware,doc,test"/>
-
- <target name="copy-jar-to-hee" if="hee.jarlib.dir">
- <copy file="${plugin.loc}" todir="${hee.jarlib.dir}"
preservelastmodified="true" />
- </target>
-</project>
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