Author: mes
Date: 2009-06-09 22:01:17 -0700 (Tue, 09 Jun 2009)
New Revision: 16902
Added:
core3/cmdline-application/trunk/
core3/cmdline-application/trunk/assembly.xml
core3/cmdline-application/trunk/cmdline-launcher/
core3/cmdline-application/trunk/cmdline-launcher/assembly.xml
core3/cmdline-application/trunk/cmdline-launcher/pom.xml
core3/cmdline-application/trunk/cmdline-launcher/src/
core3/cmdline-application/trunk/cmdline-launcher/src/main/
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/CommandLineProvider.java
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/internal/
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/internal/CommandLineProviderImpl.java
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/internal/Launcher.java
core3/cmdline-application/trunk/cmdline-launcher/src/main/resources/
core3/cmdline-application/trunk/cmdline-launcher/src/main/resources/conf/
core3/cmdline-application/trunk/cmdline-launcher/src/main/resources/conf/config.properties
core3/cmdline-application/trunk/cmdline-provision/
core3/cmdline-application/trunk/cmdline-provision/assembly.xml
core3/cmdline-application/trunk/cmdline-provision/pom.xml
core3/cmdline-application/trunk/pom.xml
Log:
initial import
Added: core3/cmdline-application/trunk/assembly.xml
===================================================================
--- core3/cmdline-application/trunk/assembly.xml
(rev 0)
+++ core3/cmdline-application/trunk/assembly.xml 2009-06-10 05:01:17 UTC
(rev 16902)
@@ -0,0 +1,29 @@
+<assembly>
+ <id>app</id>
+ <formats>
+ <format>dir</format>
+ </formats>
+ <includeBaseDirectory>false</includeBaseDirectory>
+ <moduleSets>
+ <moduleSet>
+ <includes>
+ <include>org.cytoscape:cmdline-launcher</include>
+ </includes>
+ <binaries>
+ <outputDirectory>${artifactId}</outputDirectory>
+ <unpack>false</unpack>
+
<attachmentClassifier>jar-with-dependencies</attachmentClassifier>
+ <includeDependencies>false</includeDependencies>
+ </binaries>
+ </moduleSet>
+ <moduleSet>
+ <includes>
+ <include>org.cytoscape:cmdline-provision</include>
+ </includes>
+ <binaries>
+ <outputDirectory>${artifactId}/load</outputDirectory>
+ <unpack>false</unpack>
+ </binaries>
+ </moduleSet>
+ </moduleSets>
+</assembly>
Added: core3/cmdline-application/trunk/cmdline-launcher/assembly.xml
===================================================================
--- core3/cmdline-application/trunk/cmdline-launcher/assembly.xml
(rev 0)
+++ core3/cmdline-application/trunk/cmdline-launcher/assembly.xml
2009-06-10 05:01:17 UTC (rev 16902)
@@ -0,0 +1,18 @@
+<assembly>
+ <id>launcher-jar-with-dependencies</id>
+ <formats>
+ <format>jar</format>
+ </formats>
+ <includeBaseDirectory>false</includeBaseDirectory>
+ <dependencySets>
+ <dependencySet>
+ <unpack>true</unpack>
+ <scope>runtime</scope>
+ </dependencySet>
+ </dependencySets>
+ <fileSets>
+ <fileSet>
+ <directory>${project.build.outputDirectory}</directory>
+ </fileSet>
+ </fileSets>
+</assembly>
Added: core3/cmdline-application/trunk/cmdline-launcher/pom.xml
===================================================================
--- core3/cmdline-application/trunk/cmdline-launcher/pom.xml
(rev 0)
+++ core3/cmdline-application/trunk/cmdline-launcher/pom.xml 2009-06-10
05:01:17 UTC (rev 16902)
@@ -0,0 +1,114 @@
+<project xmlns="http://maven.apache.org/POM/4.0.0";
+ xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance";
+ xsi:schemaLocation="http://maven.apache.org/POM/4.0.0
http://maven.apache.org/maven-v4_0_0.xsd";>
+
+ <parent>
+ <groupId>org.cytoscape</groupId>
+ <artifactId>cmdline-application</artifactId>
+ <version>1.0-SNAPSHOT</version>
+ </parent>
+
+ <properties>
+ <bundle.symbolicName>org.cytoscape.cmdline-launcher</bundle.symbolicName>
+ <bundle.namespace>org.cytoscape.cmdline.launcher</bundle.namespace>
+ <felix.version>1.6.1</felix.version>
+ </properties>
+
+ <modelVersion>4.0.0</modelVersion>
+ <groupId>org.cytoscape</groupId>
+ <artifactId>cmdline-launcher</artifactId>
+ <version>1.0-SNAPSHOT</version>
+
+ <name>${bundle.symbolicName} [${bundle.namespace}]</name>
+
+ <packaging>jar</packaging>
+
+ <build>
+ <plugins>
+ <plugin>
+ <groupId>org.ops4j</groupId>
+ <artifactId>maven-pax-plugin</artifactId>
+ <version>1.4</version>
+ <extensions>true</extensions>
+ </plugin>
+ <plugin>
+ <groupId>org.apache.felix</groupId>
+ <artifactId>maven-bundle-plugin</artifactId>
+ <version>1.4.3</version>
+ <configuration>
+ <instructions>
+
<Bundle-SymbolicName>${bundle.symbolicName}</Bundle-SymbolicName>
+ <Bundle-Version>${pom.version}</Bundle-Version>
+
<Export-Package>!${bundle.namespace}.internal.*,${bundle.namespace}.*;version="${pom.version}"</Export-Package>
+ <Private-Package>${bundle.namespace}.internal.*</Private-Package>
+ <!-- each module can override these defaults in their osgi.bnd
file -->
+ <_include>-osgi.bnd</_include>
+ </instructions>
+ </configuration>
+ </plugin>
+ <plugin>
+ <groupId>org.apache.maven.plugins</groupId>
+ <artifactId>maven-compiler-plugin</artifactId>
+ <configuration>
+ <source>1.5</source>
+ <target>1.5</target>
+ <showWarnings>true</showWarnings>
+ <showDeprecation>true</showDeprecation>
+ <compilerArguments>
+ <Xlint:all/>
+ <Xlint:-path/>
+ <Xmaxwarns>10000</Xmaxwarns>
+ <Xmaxerrs>10000</Xmaxerrs>
+ </compilerArguments>
+ </configuration>
+ </plugin>
+ <plugin>
+ <artifactId>maven-assembly-plugin</artifactId>
+ <configuration>
+ <descriptorRefs>
+ <descriptorRef>jar-with-dependencies</descriptorRef>
+ </descriptorRefs>
+ <archive>
+ <manifest>
+
<mainClass>org.cytoscape.cmdline.launcher.internal.Launcher</mainClass>
+ </manifest>
+ </archive>
+ </configuration>
+ <executions>
+ <execution>
+ <id>make-assembly</id>
+ <phase>package</phase>
+ <goals>
+ <goal>attached</goal>
+ </goals>
+ </execution>
+ </executions>
+ </plugin>
+ </plugins>
+ </build>
+
+ <dependencies>
+ <dependency>
+ <groupId>org.osgi</groupId>
+ <artifactId>osgi_R4_core</artifactId>
+ <version>1.0</version>
+ <scope>provided</scope>
+ </dependency>
+ <dependency>
+ <groupId>org.apache.felix</groupId>
+ <artifactId>org.apache.felix.framework</artifactId>
+ <version>${felix.version}</version>
+ </dependency>
+ <dependency>
+ <groupId>org.apache.felix</groupId>
+ <artifactId>org.apache.felix.main</artifactId>
+ <version>${felix.version}</version>
+ </dependency>
+ <dependency>
+ <groupId>org.apache.felix</groupId>
+ <artifactId>org.apache.felix.fileinstall</artifactId>
+ <version>1.0.0</version>
+ </dependency>
+ </dependencies>
+
+</project>
Added:
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/CommandLineProvider.java
===================================================================
---
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/CommandLineProvider.java
(rev 0)
+++
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/CommandLineProvider.java
2009-06-10 05:01:17 UTC (rev 16902)
@@ -0,0 +1,41 @@
+
+/*
+ Copyright (c) 2008, The Cytoscape Consortium (www.cytoscape.org)
+
+ The Cytoscape Consortium is:
+ - Institute for Systems Biology
+ - University of California San Diego
+ - Memorial Sloan-Kettering Cancer Center
+ - Institut Pasteur
+ - Agilent Technologies
+
+ This library is free software; you can redistribute it and/or modify it
+ under the terms of the GNU Lesser General Public License as published
+ by the Free Software Foundation; either version 2.1 of the License, or
+ any later version.
+
+ This library is distributed in the hope that it will be useful, but
+ WITHOUT ANY WARRANTY, WITHOUT EVEN THE IMPLIED WARRANTY OF
+ MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE. The software and
+ documentation provided hereunder is on an "as is" basis, and the
+ Institute for Systems Biology and the Whitehead Institute
+ have no obligations to provide maintenance, support,
+ updates, enhancements or modifications. In no event shall the
+ Institute for Systems Biology and the Whitehead Institute
+ be liable to any party for direct, indirect, special,
+ incidental or consequential damages, including lost profits, arising
+ out of the use of this software and its documentation, even if the
+ Institute for Systems Biology and the Whitehead Institute
+ have been advised of the possibility of such damage. See
+ the GNU Lesser General Public License for more details.
+
+ You should have received a copy of the GNU Lesser General Public License
+ along with this library; if not, write to the Free Software Foundation,
+ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
+*/
+
+package org.cytoscape.cmdline.launcher;
+
+public interface CommandLineProvider {
+ String[] getCommandLineArgs();
+}
Added:
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/internal/CommandLineProviderImpl.java
===================================================================
---
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/internal/CommandLineProviderImpl.java
(rev 0)
+++
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/internal/CommandLineProviderImpl.java
2009-06-10 05:01:17 UTC (rev 16902)
@@ -0,0 +1,73 @@
+
+/*
+ Copyright (c) 2008, The Cytoscape Consortium (www.cytoscape.org)
+
+ The Cytoscape Consortium is:
+ - Institute for Systems Biology
+ - University of California San Diego
+ - Memorial Sloan-Kettering Cancer Center
+ - Institut Pasteur
+ - Agilent Technologies
+
+ This library is free software; you can redistribute it and/or modify it
+ under the terms of the GNU Lesser General Public License as published
+ by the Free Software Foundation; either version 2.1 of the License, or
+ any later version.
+
+ This library is distributed in the hope that it will be useful, but
+ WITHOUT ANY WARRANTY, WITHOUT EVEN THE IMPLIED WARRANTY OF
+ MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE. The software and
+ documentation provided hereunder is on an "as is" basis, and the
+ Institute for Systems Biology and the Whitehead Institute
+ have no obligations to provide maintenance, support,
+ updates, enhancements or modifications. In no event shall the
+ Institute for Systems Biology and the Whitehead Institute
+ be liable to any party for direct, indirect, special,
+ incidental or consequential damages, including lost profits, arising
+ out of the use of this software and its documentation, even if the
+ Institute for Systems Biology and the Whitehead Institute
+ have been advised of the possibility of such damage. See
+ the GNU Lesser General Public License for more details.
+
+ You should have received a copy of the GNU Lesser General Public License
+ along with this library; if not, write to the Free Software Foundation,
+ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
+*/
+
+package org.cytoscape.cmdline.launcher.internal;
+
+import org.osgi.framework.BundleContext;
+import org.osgi.framework.BundleActivator;
+import org.osgi.framework.ServiceRegistration;
+import java.util.Hashtable;
+import org.cytoscape.cmdline.launcher.CommandLineProvider;
+
+public class CommandLineProviderImpl implements CommandLineProvider,
BundleActivator {
+
+ private String[] args;
+ private ServiceRegistration reg;
+
+ public CommandLineProviderImpl(String[] args) {
+ if ( args == null )
+ this.args = new String[0];
+ else
+ this.args = args;
+ }
+
+ public void start(BundleContext bc) {
+ reg =
bc.registerService(CommandLineProvider.class.getName(),this,new Hashtable());
+ }
+
+ public void stop(BundleContext bc) {
+ if ( reg != null )
+ reg.unregister();
+ }
+
+ public String[] getCommandLineArgs() {
+ String[] ret = new String[args.length];
+ System.arraycopy(args,0,ret,0,args.length);
+ return ret;
+ }
+}
+
+
Added:
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/internal/Launcher.java
===================================================================
---
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/internal/Launcher.java
(rev 0)
+++
core3/cmdline-application/trunk/cmdline-launcher/src/main/java/org/cytoscape/cmdline/launcher/internal/Launcher.java
2009-06-10 05:01:17 UTC (rev 16902)
@@ -0,0 +1,103 @@
+
+/*
+ Copyright (c) 2008, The Cytoscape Consortium (www.cytoscape.org)
+
+ The Cytoscape Consortium is:
+ - Institute for Systems Biology
+ - University of California San Diego
+ - Memorial Sloan-Kettering Cancer Center
+ - Institut Pasteur
+ - Agilent Technologies
+
+ This library is free software; you can redistribute it and/or modify it
+ under the terms of the GNU Lesser General Public License as published
+ by the Free Software Foundation; either version 2.1 of the License, or
+ any later version.
+
+ This library is distributed in the hope that it will be useful, but
+ WITHOUT ANY WARRANTY, WITHOUT EVEN THE IMPLIED WARRANTY OF
+ MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE. The software and
+ documentation provided hereunder is on an "as is" basis, and the
+ Institute for Systems Biology and the Whitehead Institute
+ have no obligations to provide maintenance, support,
+ updates, enhancements or modifications. In no event shall the
+ Institute for Systems Biology and the Whitehead Institute
+ be liable to any party for direct, indirect, special,
+ incidental or consequential damages, including lost profits, arising
+ out of the use of this software and its documentation, even if the
+ Institute for Systems Biology and the Whitehead Institute
+ have been advised of the possibility of such damage. See
+ the GNU Lesser General Public License for more details.
+
+ You should have received a copy of the GNU Lesser General Public License
+ along with this library; if not, write to the Free Software Foundation,
+ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
+*/
+
+package org.cytoscape.cmdline.launcher.internal;
+
+import org.apache.felix.framework.Felix;
+import org.apache.felix.framework.util.FelixConstants;
+import org.apache.felix.framework.util.StringMap;
+import org.apache.felix.main.AutoActivator;
+import org.apache.felix.main.Main;
+import org.apache.felix.fileinstall.FileInstall;
+
+import org.osgi.framework.Constants;
+import org.osgi.framework.BundleActivator;
+
+import java.util.*;
+
+
+/**
+ * A class that launches Felix and automatically starts the FileInstall
+ * bundle as well as starting a CommandLineProvider service.
+ */
+public class Launcher {
+
+ /**
+ * The main method.
+ *
+ * @param args The command line arguments.
+ */
+ public static void main(String[] args) {
+
+ // Tell felix where the config file is.
+ System.setProperty(Main.CONFIG_PROPERTIES_PROP,
+
Launcher.class.getResource("/conf/config.properties").toString());
+
+ // Load system properties.
+ Main.loadSystemProperties();
+
+ // Read configuration properties.
+ Properties configProps = Main.loadConfigProperties();
+
+ // Copy framework properties from the system properties.
+ Main.copySystemProperties(configProps);
+
+ try {
+ // Create a list of bundles to start automatically.
+ List<BundleActivator> list = new ArrayList<BundleActivator>();
+ list.add(new AutoActivator(configProps)); // from config
auto.start
+ list.add(new FileInstall());
+ list.add(new CommandLineProviderImpl(args));
+ configProps.put(FelixConstants.SYSTEMBUNDLE_ACTIVATORS_PROP,
list);
+
+ // Create a case-insensitive property map.
+ Map configMap = new StringMap(configProps, false);
+
+ // Create an instance of the framework.
+ Felix m_felix = new Felix(configMap);
+ m_felix.start();
+
+ // Wait for framework to stop to exit the VM.
+ m_felix.waitForStop(0);
+ System.exit(0);
+
+ } catch (Exception ex) {
+ System.err.println("Could not create framework: " + ex);
+ ex.printStackTrace();
+ System.exit(-1);
+ }
+ }
+}
Added:
core3/cmdline-application/trunk/cmdline-launcher/src/main/resources/conf/config.properties
===================================================================
---
core3/cmdline-application/trunk/cmdline-launcher/src/main/resources/conf/config.properties
(rev 0)
+++
core3/cmdline-application/trunk/cmdline-launcher/src/main/resources/conf/config.properties
2009-06-10 05:01:17 UTC (rev 16902)
@@ -0,0 +1,477 @@
+# Licensed to the Apache Software Foundation (ASF) under one
+# or more contributor license agreements. See the NOTICE file
+# distributed with this work for additional information
+# regarding copyright ownership. The ASF licenses this file
+# to you under the Apache License, Version 2.0 (the
+# "License"); you may not use this file except in compliance
+# with the License. You may obtain a copy of the License at
+#
+# http://www.apache.org/licenses/LICENSE-2.0
+#
+# Unless required by applicable law or agreed to in writing,
+# software distributed under the License is distributed on an
+# "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
+# KIND, either express or implied. See the License for the
+# specific language governing permissions and limitations
+# under the License.
+
+#
+# Framework config properties.
+#
+org.osgi.framework.system.packages=org.osgi.framework; version=1.4.0, \
+ org.osgi.service.packageadmin; version=1.2.0, \
+ org.osgi.service.startlevel; version=1.1.0, \
+ org.osgi.service.url; version=1.0.0, \
+ org.osgi.util.tracker; version=1.3.2 \
+ ${jre-${java.specification.version}}
+
+#org.osgi.framework.bootdelegation=sun.*,com.sun.*
+#felix.cache.profile=foo
+#felix.auto.start.1= \
+# file:bundle/org.apache.felix.shell_1.2.0.jar \
+# file:bundle/org.apache.felix.shell.tui_1.2.0.jar \
+# file:bundle/org.apache.felix.fileinstall_1.0.0.jar
+
+felix.log.level=1
+felix.startlevel.framework=1
+felix.startlevel.bundle=1
+#felix.service.urlhandlers=false
+
+#
+# Bundle config properties.
+#
+org.osgi.service.http.port=8080
+osgi.shell.telnet=on
+#obr.repository.url=http://bundles.osgi.org/obr/browse?_xml=1&cmd=repository
+
+
+#
+# Java platform package export properties.
+#
+jre-1.3=, \
+ javax.accessibility; \
+ javax.naming; \
+ javax.naming.directory; \
+ javax.naming.event; \
+ javax.naming.ldap; \
+ javax.naming.spi; \
+ javax.rmi; \
+ javax.rmi.CORBA; \
+ javax.sound.midi; \
+ javax.sound.midi.spi; \
+ javax.sound.sampled; \
+ javax.sound.sampled.spi; \
+ javax.swing; \
+ javax.swing.border; \
+ javax.swing.colorchooser; \
+ javax.swing.event; \
+ javax.swing.filechooser; \
+ javax.swing.plaf; \
+ javax.swing.plaf.basic; \
+ javax.swing.plaf.metal; \
+ javax.swing.plaf.multi; \
+ javax.swing.table; \
+ javax.swing.text; \
+ javax.swing.text.html; \
+ javax.swing.text.html.parser; \
+ javax.swing.text.rtf; \
+ javax.swing.tree; \
+ javax.swing.undo; \
+ javax.transaction; \
+ org.omg.CORBA; \
+ org.omg.CORBA_2_3; \
+ org.omg.CORBA_2_3.portable; \
+ org.omg.CORBA.DynAnyPackage; \
+ org.omg.CORBA.ORBPackage; \
+ org.omg.CORBA.portable; \
+ org.omg.CORBA.TypeCodePackage; \
+ org.omg.CosNaming; \
+ org.omg.CosNaming.NamingContextPackage; \
+ org.omg.SendingContext; \
+ org.omg.stub.java.rmi; \
+ version="1.3.0"
+
+jre-1.4=, \
+ javax.accessibility; \
+ javax.crypto; \
+ javax.crypto.interfaces; \
+ javax.crypto.spec; \
+ javax.imageio; \
+ javax.imageio.event; \
+ javax.imageio.metadata; \
+ javax.imageio.plugins.jpeg; \
+ javax.imageio.spi; \
+ javax.imageio.stream; \
+ javax.naming; \
+ javax.naming.directory; \
+ javax.naming.event; \
+ javax.naming.ldap; \
+ javax.naming.spi; \
+ javax.net; \
+ javax.net.ssl; \
+ javax.print; \
+ javax.print.attribute; \
+ javax.print.attribute.standard; \
+ javax.print.event; \
+ javax.rmi; \
+ javax.rmi.CORBA; \
+ javax.security.auth; \
+ javax.security.auth.callback; \
+ javax.security.auth.kerberos; \
+ javax.security.auth.login; \
+ javax.security.auth.spi; \
+ javax.security.auth.x500; \
+ javax.sound.midi; \
+ javax.sound.midi.spi; \
+ javax.sound.sampled; \
+ javax.sound.sampled.spi; \
+ javax.sql; \
+ javax.swing; \
+ javax.swing.border; \
+ javax.swing.colorchooser; \
+ javax.swing.event; \
+ javax.swing.filechooser; \
+ javax.swing.plaf; \
+ javax.swing.plaf.basic; \
+ javax.swing.plaf.metal; \
+ javax.swing.plaf.multi; \
+ javax.swing.table; \
+ javax.swing.text; \
+ javax.swing.text.html; \
+ javax.swing.text.html.parser; \
+ javax.swing.text.rtf; \
+ javax.swing.tree; \
+ javax.swing.undo; \
+ javax.transaction; \
+ javax.transaction.xa; \
+ javax.xml.parsers; \
+ javax.xml.transform; \
+ javax.xml.transform.dom; \
+ javax.xml.transform.sax; \
+ javax.xml.transform.stream; \
+ org.ietf.jgss; \
+ org.omg.CORBA; \
+ org.omg.CORBA_2_3; \
+ org.omg.CORBA_2_3.portable; \
+ org.omg.CORBA.DynAnyPackage; \
+ org.omg.CORBA.ORBPackage; \
+ org.omg.CORBA.portable; \
+ org.omg.CORBA.TypeCodePackage; \
+ org.omg.CosNaming; \
+ org.omg.CosNaming.NamingContextExtPackage; \
+ org.omg.CosNaming.NamingContextPackage; \
+ org.omg.Dynamic; \
+ org.omg.DynamicAny; \
+ org.omg.DynamicAny.DynAnyFactoryPackage; \
+ org.omg.DynamicAny.DynAnyPackage; \
+ org.omg.IOP; \
+ org.omg.IOP.CodecFactoryPackage; \
+ org.omg.IOP.CodecPackage; \
+ org.omg.Messaging; \
+ org.omg.PortableInterceptor; \
+ org.omg.PortableInterceptor.ORBInitInfoPackage; \
+ org.omg.PortableServer; \
+ org.omg.PortableServer.CurrentPackage; \
+ org.omg.PortableServer.POAManagerPackage; \
+ org.omg.PortableServer.POAPackage; \
+ org.omg.PortableServer.portable; \
+ org.omg.PortableServer.ServantLocatorPackage; \
+ org.omg.SendingContext; \
+ org.omg.stub.java.rmi; \
+ org.w3c.dom; \
+ org.w3c.dom.css; \
+ org.w3c.dom.events; \
+ org.w3c.dom.html; \
+ org.w3c.dom.stylesheets; \
+ org.w3c.dom.traversal; \
+ org.w3c.dom.views; \
+ org.xml.sax; \
+ org.xml.sax.ext; \
+ org.xml.sax.helpers; \
+ version="1.4.0"
+
+jre-1.5=, \
+ javax.accessibility; \
+ javax.activity; \
+ javax.crypto; \
+ javax.crypto.interfaces; \
+ javax.crypto.spec; \
+ javax.imageio; \
+ javax.imageio.event; \
+ javax.imageio.metadata; \
+ javax.imageio.plugins.bmp; \
+ javax.imageio.plugins.jpeg; \
+ javax.imageio.spi; \
+ javax.imageio.stream; \
+ javax.management; \
+ javax.management.loading; \
+ javax.management.modelmbean; \
+ javax.management.monitor; \
+ javax.management.openmbean; \
+ javax.management.relation; \
+ javax.management.remote; \
+ javax.management.remote.rmi; \
+ javax.management.timer; \
+ javax.naming; \
+ javax.naming.directory; \
+ javax.naming.event; \
+ javax.naming.ldap; \
+ javax.naming.spi; \
+ javax.net; \
+ javax.net.ssl; \
+ javax.print; \
+ javax.print.attribute; \
+ javax.print.attribute.standard; \
+ javax.print.event; \
+ javax.rmi; \
+ javax.rmi.CORBA; \
+ javax.rmi.ssl; \
+ javax.security.auth; \
+ javax.security.auth.callback; \
+ javax.security.auth.kerberos; \
+ javax.security.auth.login; \
+ javax.security.auth.spi; \
+ javax.security.auth.x500; \
+ javax.security.sasl; \
+ javax.sound.midi; \
+ javax.sound.midi.spi; \
+ javax.sound.sampled; \
+ javax.sound.sampled.spi; \
+ javax.sql; \
+ javax.sql.rowset; \
+ javax.sql.rowset.serial; \
+ javax.sql.rowset.spi; \
+ javax.swing; \
+ javax.swing.border; \
+ javax.swing.colorchooser; \
+ javax.swing.event; \
+ javax.swing.filechooser; \
+ javax.swing.plaf; \
+ javax.swing.plaf.basic; \
+ javax.swing.plaf.metal; \
+ javax.swing.plaf.multi; \
+ javax.swing.plaf.synth; \
+ javax.swing.table; \
+ javax.swing.text; \
+ javax.swing.text.html; \
+ javax.swing.text.html.parser; \
+ javax.swing.text.rtf; \
+ javax.swing.tree; \
+ javax.swing.undo; \
+ javax.transaction; \
+ javax.transaction.xa; \
+ javax.xml; \
+ javax.xml.datatype; \
+ javax.xml.namespace; \
+ javax.xml.parsers; \
+ javax.xml.transform; \
+ javax.xml.transform.dom; \
+ javax.xml.transform.sax; \
+ javax.xml.transform.stream; \
+ javax.xml.validation; \
+ javax.xml.xpath; \
+ org.ietf.jgss; \
+ org.omg.CORBA; \
+ org.omg.CORBA_2_3; \
+ org.omg.CORBA_2_3.portable; \
+ org.omg.CORBA.DynAnyPackage; \
+ org.omg.CORBA.ORBPackage; \
+ org.omg.CORBA.portable; \
+ org.omg.CORBA.TypeCodePackage; \
+ org.omg.CosNaming; \
+ org.omg.CosNaming.NamingContextExtPackage; \
+ org.omg.CosNaming.NamingContextPackage; \
+ org.omg.Dynamic; \
+ org.omg.DynamicAny; \
+ org.omg.DynamicAny.DynAnyFactoryPackage; \
+ org.omg.DynamicAny.DynAnyPackage; \
+ org.omg.IOP; \
+ org.omg.IOP.CodecFactoryPackage; \
+ org.omg.IOP.CodecPackage; \
+ org.omg.Messaging; \
+ org.omg.PortableInterceptor; \
+ org.omg.PortableInterceptor.ORBInitInfoPackage; \
+ org.omg.PortableServer; \
+ org.omg.PortableServer.CurrentPackage; \
+ org.omg.PortableServer.POAManagerPackage; \
+ org.omg.PortableServer.POAPackage; \
+ org.omg.PortableServer.portable; \
+ org.omg.PortableServer.ServantLocatorPackage; \
+ org.omg.SendingContext; \
+ org.omg.stub.java.rmi; \
+ org.omg.stub.javax.management.remote.rmi; \
+ org.w3c.dom; \
+ org.w3c.dom.bootstrap; \
+ org.w3c.dom.css; \
+ org.w3c.dom.events; \
+ org.w3c.dom.html; \
+ org.w3c.dom.ls; \
+ org.w3c.dom.ranges; \
+ org.w3c.dom.stylesheets; \
+ org.w3c.dom.traversal; \
+ org.w3c.dom.views; \
+ org.xml.sax; \
+ org.xml.sax.ext; \
+ org.xml.sax.helpers; \
+ version="1.5.0"
+
+jre-1.6=, \
+ javax.accessibility; \
+ javax.activation; \
+ javax.activity; \
+ javax.annotation; \
+ javax.annotation.processing; \
+ javax.crypto; \
+ javax.crypto.interfaces; \
+ javax.crypto.spec; \
+ javax.imageio; \
+ javax.imageio.event; \
+ javax.imageio.metadata; \
+ javax.imageio.plugins.bmp; \
+ javax.imageio.plugins.jpeg; \
+ javax.imageio.spi; \
+ javax.imageio.stream; \
+ javax.jws; \
+ javax.jws.soap; \
+ javax.lang.model; \
+ javax.lang.model.element; \
+ javax.lang.model.type; \
+ javax.lang.model.util; \
+ javax.management; \
+ javax.management.loading; \
+ javax.management.modelmbean; \
+ javax.management.monitor; \
+ javax.management.openmbean; \
+ javax.management.relation; \
+ javax.management.remote; \
+ javax.management.remote.rmi; \
+ javax.management.timer; \
+ javax.naming; \
+ javax.naming.directory; \
+ javax.naming.event; \
+ javax.naming.ldap; \
+ javax.naming.spi; \
+ javax.net; \
+ javax.net.ssl; \
+ javax.print; \
+ javax.print.attribute; \
+ javax.print.attribute.standard; \
+ javax.print.event; \
+ javax.rmi; \
+ javax.rmi.CORBA; \
+ javax.rmi.ssl; \
+ javax.script; \
+ javax.security.auth; \
+ javax.security.auth.callback; \
+ javax.security.auth.kerberos; \
+ javax.security.auth.login; \
+ javax.security.auth.spi; \
+ javax.security.auth.x500; \
+ javax.security.cert; \
+ javax.security.sasl; \
+ javax.sound.midi; \
+ javax.sound.midi.spi; \
+ javax.sound.sampled; \
+ javax.sound.sampled.spi; \
+ javax.sql; \
+ javax.sql.rowset; \
+ javax.sql.rowset.serial; \
+ javax.sql.rowset.spi; \
+ javax.swing; \
+ javax.swing.border; \
+ javax.swing.colorchooser; \
+ javax.swing.event; \
+ javax.swing.filechooser; \
+ javax.swing.plaf; \
+ javax.swing.plaf.basic; \
+ javax.swing.plaf.metal; \
+ javax.swing.plaf.multi; \
+ javax.swing.plaf.synth; \
+ javax.swing.table; \
+ javax.swing.text; \
+ javax.swing.text.html; \
+ javax.swing.text.html.parser; \
+ javax.swing.text.rtf; \
+ javax.swing.tree; \
+ javax.swing.undo; \
+ javax.tools; \
+ javax.transaction; \
+ javax.transaction.xa; \
+ javax.xml; \
+ javax.xml.bind; \
+ javax.xml.bind.annotation; \
+ javax.xml.bind.annotation.adapters; \
+ javax.xml.bind.attachment; \
+ javax.xml.bind.helpers; \
+ javax.xml.bind.util; \
+ javax.xml.crypto; \
+ javax.xml.crypto.dom; \
+ javax.xml.crypto.dsig; \
+ javax.xml.crypto.dsig.dom; \
+ javax.xml.crypto.dsig.keyinfo; \
+ javax.xml.crypto.dsig.spec; \
+ javax.xml.datatype; \
+ javax.xml.namespace; \
+ javax.xml.parsers; \
+ javax.xml.soap; \
+ javax.xml.stream; \
+ javax.xml.stream.events; \
+ javax.xml.stream.util; \
+ javax.xml.transform; \
+ javax.xml.transform.dom; \
+ javax.xml.transform.sax; \
+ javax.xml.transform.stax; \
+ javax.xml.transform.stream; \
+ javax.xml.validation; \
+ javax.xml.ws; \
+ javax.xml.ws.handler; \
+ javax.xml.ws.handler.soap; \
+ javax.xml.ws.http; \
+ javax.xml.ws.soap; \
+ javax.xml.ws.spi; \
+ javax.xml.xpath; \
+ org.ietf.jgss; \
+ org.omg.CORBA; \
+ org.omg.CORBA_2_3; \
+ org.omg.CORBA_2_3.portable; \
+ org.omg.CORBA.DynAnyPackage; \
+ org.omg.CORBA.ORBPackage; \
+ org.omg.CORBA.portable; \
+ org.omg.CORBA.TypeCodePackage; \
+ org.omg.CosNaming; \
+ org.omg.CosNaming.NamingContextExtPackage; \
+ org.omg.CosNaming.NamingContextPackage; \
+ org.omg.Dynamic; \
+ org.omg.DynamicAny; \
+ org.omg.DynamicAny.DynAnyFactoryPackage; \
+ org.omg.DynamicAny.DynAnyPackage; \
+ org.omg.IOP; \
+ org.omg.IOP.CodecFactoryPackage; \
+ org.omg.IOP.CodecPackage; \
+ org.omg.Messaging; \
+ org.omg.PortableInterceptor; \
+ org.omg.PortableInterceptor.ORBInitInfoPackage; \
+ org.omg.PortableServer; \
+ org.omg.PortableServer.CurrentPackage; \
+ org.omg.PortableServer.POAManagerPackage; \
+ org.omg.PortableServer.POAPackage; \
+ org.omg.PortableServer.portable; \
+ org.omg.PortableServer.ServantLocatorPackage; \
+ org.omg.SendingContext; \
+ org.omg.stub.java.rmi; \
+ org.omg.stub.javax.management.remote.rmi; \
+ org.w3c.dom; \
+ org.w3c.dom.bootstrap; \
+ org.w3c.dom.css; \
+ org.w3c.dom.events; \
+ org.w3c.dom.html; \
+ org.w3c.dom.ls; \
+ org.w3c.dom.ranges; \
+ org.w3c.dom.stylesheets; \
+ org.w3c.dom.traversal; \
+ org.w3c.dom.views; \
+ org.w3c.dom.xpath; \
+ org.xml.sax; \
+ org.xml.sax.ext; \
+ org.xml.sax.helpers; \
+ version=\"1.6.0\"
Added: core3/cmdline-application/trunk/cmdline-provision/assembly.xml
===================================================================
--- core3/cmdline-application/trunk/cmdline-provision/assembly.xml
(rev 0)
+++ core3/cmdline-application/trunk/cmdline-provision/assembly.xml
2009-06-10 05:01:17 UTC (rev 16902)
@@ -0,0 +1,14 @@
+<assembly>
+ <id>cmdline-provision</id>
+ <formats>
+ <format>dir</format>
+ </formats>
+ <includeBaseDirectory>false</includeBaseDirectory>
+ <dependencySets>
+ <dependencySet>
+ <outputDirectory>/load</outputDirectory>
+ <unpack>false</unpack>
+ <scope>runtime</scope>
+ </dependencySet>
+ </dependencySets>
+</assembly>
Added: core3/cmdline-application/trunk/cmdline-provision/pom.xml
===================================================================
--- core3/cmdline-application/trunk/cmdline-provision/pom.xml
(rev 0)
+++ core3/cmdline-application/trunk/cmdline-provision/pom.xml 2009-06-10
05:01:17 UTC (rev 16902)
@@ -0,0 +1,115 @@
+<project xmlns="http://maven.apache.org/POM/4.0.0";
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance";
+ xsi:schemaLocation="http://maven.apache.org/POM/4.0.0
http://maven.apache.org/maven-v4_0_0.xsd";>
+
+ <parent>
+ <groupId>org.cytoscape</groupId>
+ <artifactId>cmdline-application</artifactId>
+ <version>1.0-SNAPSHOT</version>
+ </parent>
+
+ <modelVersion>4.0.0</modelVersion>
+ <groupId>org.cytoscape</groupId>
+ <artifactId>cmdline-provision</artifactId>
+ <version>1.0-SNAPSHOT</version>
+
+ <packaging>jar</packaging>
+
+ <name>cmdline-application imported bundles</name>
+
+ <build>
+ <plugins>
+ <plugin>
+ <artifactId>maven-assembly-plugin</artifactId>
+ <configuration>
+ <descriptors>
+ <descriptor>assembly.xml</descriptor>
+ </descriptors>
+ </configuration>
+ <executions>
+ <execution>
+ <id>make-assembly</id>
+ <phase>package</phase>
+ <goals>
+ <goal>attached</goal>
+ </goals>
+ </execution>
+ </executions>
+ </plugin>
+ </plugins>
+ </build>
+
+
+ <dependencies>
+ <!--
+ <dependency>
+ <groupId>org.springframework</groupId>
+ <artifactId>spring-aop</artifactId>
+ <version>${spring.version}</version>
+ </dependency>
+ <dependency>
+ <groupId>org.springframework</groupId>
+ <artifactId>spring-beans</artifactId>
+ <version>${spring.version}</version>
+ </dependency>
+ <dependency>
+ <groupId>org.springframework</groupId>
+ <artifactId>spring-context</artifactId>
+ <version>${spring.version}</version>
+ </dependency>
+ <dependency>
+ <groupId>org.springframework</groupId>
+ <artifactId>spring-core</artifactId>
+ <version>${spring.version}</version>
+ </dependency>
+ <dependency>
+ <groupId>org.aopalliance</groupId>
+ <artifactId>com.springsource.org.aopalliance
+ </artifactId>
+ <version>1.0.0</version>
+ </dependency>
+ <dependency>
+ <groupId>org.springframework.osgi</groupId>
+ <artifactId>spring-osgi-extender</artifactId>
+ <version>${spring.osgi.version}</version>
+ </dependency>
+ <dependency>
+ <groupId>org.springframework.osgi</groupId>
+ <artifactId>spring-osgi-core</artifactId>
+ <version>${spring.osgi.version}</version>
+ </dependency>
+ <dependency>
+ <groupId>org.springframework.osgi</groupId>
+ <artifactId>spring-osgi-io</artifactId>
+ <version>${spring.osgi.version}</version>
+ </dependency>
+ <dependency>
+ <groupId>org.slf4j</groupId>
+
<artifactId>com.springsource.slf4j.org.apache.commons.logging
+ </artifactId>
+ <version>1.5.0</version>
+ </dependency>
+ <dependency>
+ <groupId>org.slf4j</groupId>
+ <artifactId>com.springsource.slf4j.api
+ </artifactId>
+ <version>1.5.0</version>
+ </dependency>
+ <dependency>
+ <groupId>org.slf4j</groupId>
+ <artifactId>com.springsource.slf4j.log4j</artifactId>
+ <version>1.5.0</version>
+ </dependency>
+ -->
+ <dependency>
+ <groupId>org.apache.felix</groupId>
+ <artifactId>org.apache.felix.shell</artifactId>
+ <version>1.2.0</version>
+ </dependency>
+ <dependency>
+ <groupId>org.apache.felix</groupId>
+ <artifactId>org.apache.felix.shell.tui</artifactId>
+ <version>1.2.0</version>
+ </dependency>
+
+ </dependencies>
+</project>
Added: core3/cmdline-application/trunk/pom.xml
===================================================================
--- core3/cmdline-application/trunk/pom.xml (rev 0)
+++ core3/cmdline-application/trunk/pom.xml 2009-06-10 05:01:17 UTC (rev
16902)
@@ -0,0 +1,53 @@
+<project xmlns="http://maven.apache.org/POM/4.0.0";
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance";
+ xsi:schemaLocation="http://maven.apache.org/POM/4.0.0
http://maven.apache.org/maven-v4_0_0.xsd";>
+
+ <parent>
+ <artifactId>parent</artifactId>
+ <groupId>org.cytoscape</groupId>
+ <version>1.0-SNAPSHOT</version>
+ </parent>
+
+ <modelVersion>4.0.0</modelVersion>
+ <groupId>org.cytoscape</groupId>
+ <artifactId>cmdline-application</artifactId>
+ <version>1.0-SNAPSHOT</version>
+
+ <properties>
+
<bundle.symbolicName>org.cytoscape.cmdline-application</bundle.symbolicName>
+ <bundle.namespace>org.cytoscape.cmdline</bundle.namespace>
+ </properties>
+
+ <name>${bundle.symbolicName} [${bundle.namespace}]</name>
+
+ <packaging>pom</packaging>
+
+ <build>
+ <plugins>
+ <plugin>
+ <artifactId>maven-assembly-plugin</artifactId>
+ <configuration>
+ <descriptors>
+ <descriptor>assembly.xml</descriptor>
+ </descriptors>
+ </configuration>
+ <!--
+ <executions>
+ <execution>
+ <id>make-assembly</id>
+ <phase>package</phase>
+ <goals>
+ <goal>attached</goal>
+ </goals>
+ </execution>
+ </executions>
+ -->
+ </plugin>
+ </plugins>
+ </build>
+
+ <modules>
+ <module>cmdline-launcher</module>
+ <module>cmdline-provision</module>
+ </modules>
+
+</project>
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