Author: mes Date: 2011-01-07 14:03:18 -0800 (Fri, 07 Jan 2011) New Revision: 23354
Added: core3/gui-distribution/trunk/ core3/gui-distribution/trunk/distribution/ core3/gui-distribution/trunk/distribution/pom.xml core3/gui-distribution/trunk/distribution/src/ core3/gui-distribution/trunk/distribution/src/main/ core3/gui-distribution/trunk/distribution/src/main/assembly/ core3/gui-distribution/trunk/distribution/src/main/assembly/src.xml core3/gui-distribution/trunk/distribution/src/main/bin/ core3/gui-distribution/trunk/distribution/src/main/bin/cytoscape.sh core3/gui-distribution/trunk/distribution/src/main/resources/ core3/gui-distribution/trunk/distribution/src/main/resources/configurations/ core3/gui-distribution/trunk/distribution/src/main/resources/configurations/factories/ core3/gui-distribution/trunk/distribution/src/main/resources/configurations/services/ core3/gui-distribution/trunk/distribution/src/main/resources/configurations/services/org.ops4j.pax.logging.properties core3/gui-distribution/trunk/pom.xml core3/gui-distribution/trunk/startlevel-1/ core3/gui-distribution/trunk/startlevel-1/pom.xml core3/gui-distribution/trunk/startlevel-2/ core3/gui-distribution/trunk/startlevel-2/pom.xml core3/gui-distribution/trunk/startlevel-3/ core3/gui-distribution/trunk/startlevel-3/pom.xml Log: initial import Added: core3/gui-distribution/trunk/distribution/pom.xml =================================================================== --- core3/gui-distribution/trunk/distribution/pom.xml (rev 0) +++ core3/gui-distribution/trunk/distribution/pom.xml 2011-01-07 22:03:18 UTC (rev 23354) @@ -0,0 +1,74 @@ +<?xml version="1.0" encoding="UTF-8"?> +<project xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd"; xmlns="http://maven.apache.org/POM/4.0.0"; xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance";> + + <parent> + <groupId>org.cytoscape</groupId> + <artifactId>gui-distribution</artifactId> + <version>1.0-SNAPSHOT</version> + </parent> + + <modelVersion>4.0.0</modelVersion> + <groupId>org.cytoscape.gui-distribution</groupId> + <artifactId>distribution</artifactId> + + <name>Distribution</name> + + <packaging>jar</packaging> + + <build> + <plugins> + <plugin> + <artifactId>maven-assembly-plugin</artifactId> + <configuration> + <descriptors> + <descriptor>src/main/assembly/src.xml</descriptor> + </descriptors> + </configuration> + <executions> + <execution> + <id>directory-assembly</id> + <phase>compile</phase> + <goals> + <goal>directory-single</goal> + </goals> + </execution> + <execution> + <id>zip-assembly</id> + <phase>package</phase> + <goals> + <goal>single</goal> + </goals> + </execution> + </executions> + </plugin> + </plugins> + </build> + + <dependencies> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>launcher</artifactId> + <version>${version}</version> + <classifier>jar-with-dependencies</classifier> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>startlevel-1</artifactId> + <version>${version}</version> + <type>zip</type> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>startlevel-2</artifactId> + <version>${version}</version> + <type>zip</type> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>startlevel-3</artifactId> + <version>${version}</version> + <type>zip</type> + </dependency> + </dependencies> + +</project> Added: core3/gui-distribution/trunk/distribution/src/main/assembly/src.xml =================================================================== --- core3/gui-distribution/trunk/distribution/src/main/assembly/src.xml (rev 0) +++ core3/gui-distribution/trunk/distribution/src/main/assembly/src.xml 2011-01-07 22:03:18 UTC (rev 23354) @@ -0,0 +1,34 @@ +<assembly xmlns="http://maven.apache.org/plugins/maven-assembly-plugin/assembly/1.1.0"; + xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"; + xsi:schemaLocation="http://maven.apache.org/plugins/maven-assembly-plugin/assembly/1.1.0 http://maven.apache.org/xsd/assembly-1.1.0.xsd";> + <formats> + <format>zip</format> + </formats> + <fileSets> + <fileSet> + <directory>${basedir}/src/main/resources</directory> + <outputDirectory>bundles</outputDirectory> + <fileMode>0644</fileMode> + </fileSet> + <fileSet> + <directory>${basedir}/src/main/bin</directory> + <outputDirectory>/</outputDirectory> + <fileMode>0755</fileMode> + </fileSet> + </fileSets> + <dependencySets> + <dependencySet> + <includes> + <include>org.cytoscape:launcher:jar:jar-with-dependencies</include> + </includes> + <unpack>false</unpack> + </dependencySet> + <dependencySet> + <includes> + <include>org.cytoscape.gui-distribution:startlevel-*:zip</include> + </includes> + <outputDirectory>bundles</outputDirectory> + <unpack>true</unpack> + </dependencySet> + </dependencySets> +</assembly> Added: core3/gui-distribution/trunk/distribution/src/main/bin/cytoscape.sh =================================================================== --- core3/gui-distribution/trunk/distribution/src/main/bin/cytoscape.sh (rev 0) +++ core3/gui-distribution/trunk/distribution/src/main/bin/cytoscape.sh 2011-01-07 22:03:18 UTC (rev 23354) @@ -0,0 +1,3 @@ +#!/bin/bash + +java -jar -Xss10M -Xmx1550M -Dswing.aatext=true -Dawt.useSystemAAFontSettings=lcd -Dapple.laf.useScreenMenuBar=true -Dapple.awt.fileDialogForDirectories=true -Dapple.awt.graphics.UseQuartz=true -Dcom.apple.mrj.application.apple.menu.about.name=Cytoscape -Dorg.ops4j.pax.logging.DefaultServiceLog.level=NONE -Dbundles.configuration.location=bundles/configurations launcher-1.0-SNAPSHOT-jar-with-dependencies.jar Added: core3/gui-distribution/trunk/distribution/src/main/resources/configurations/services/org.ops4j.pax.logging.properties =================================================================== --- core3/gui-distribution/trunk/distribution/src/main/resources/configurations/services/org.ops4j.pax.logging.properties (rev 0) +++ core3/gui-distribution/trunk/distribution/src/main/resources/configurations/services/org.ops4j.pax.logging.properties 2011-01-07 22:03:18 UTC (rev 23354) @@ -0,0 +1,42 @@ +# pax-logging configuration +# author: Pasteur + +# The following specifies that log messages are sent to the Console and +# status bar +log4j.rootLogger=ALL, stdout, osgi:OrgCytoscapeLogSwingAdvancedAppender, osgi:OrgCytoscapeLogSwingSimpleAppender, osgi:OrgCytoscapeLogSwingStatusBarAppender + +# +# Log messages from the standard library classes, JVM-specific +# classes, the OSGi framework, and the Spring framework will +# be written to a separate file to avoid message overload. +# These messages are useful for debugging framework related +# problems (e.g. why didn't my service get registered?), but +# aren't (generally) relevant to Cytoscape operations. +# +# Messages include: +# java.*, javax.*, sun.*, and org.springframework.*. +# + +log4j.appender.file=org.apache.log4j.DailyRollingFileAppender +log4j.appender.file.threshold=INFO +log4j.appender.file.File=framework-cytoscape.log +log4j.appender.file.layout=org.apache.log4j.PatternLayout +log4j.appender.file.layout.ConversionPattern=%d [%t] %-5p %c - %m%n + +log4j.appender.stdout=org.apache.log4j.ConsoleAppender +log4j.appender.stdout.layout.ConversionPattern=%t %p [%c] - %m%n +log4j.appender.stdout.layout=org.apache.log4j.PatternLayout +log4j.appender.stdout.threshold=ERROR + + +log4j.logger.java=NONE,file +log4j.additivity.java=false + +log4j.logger.javax=NONE,file +log4j.additivity.javax=false + +log4j.logger.sun=NONE,file +log4j.additivity.sun=false + +log4j.logger.org.springframework=NONE,file +log4j.additivity.org.springframework=false Added: core3/gui-distribution/trunk/pom.xml =================================================================== --- core3/gui-distribution/trunk/pom.xml (rev 0) +++ core3/gui-distribution/trunk/pom.xml 2011-01-07 22:03:18 UTC (rev 23354) @@ -0,0 +1,58 @@ +<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>3.0.0-alpha4-SNAPSHOT</version> + </parent> + + <modelVersion>4.0.0</modelVersion> + <groupId>org.cytoscape</groupId> + <artifactId>gui-distribution</artifactId> + <version>1.0-SNAPSHOT</version> + + <name>Cytoscape</name> + + <packaging>pom</packaging> + + <build> + <pluginManagement> + <plugins> + <!-- this assembly is only for the startlevel modules, distribution has its own --> + <plugin> + <artifactId>maven-assembly-plugin</artifactId> + <dependencies> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>startlevel-assembly</artifactId> + <version>${version}</version> + </dependency> + </dependencies> + <executions> + <execution> + <id>make-assembly</id> + <phase>package</phase> + <goals> + <goal>single</goal> + </goals> + <configuration> + <descriptorRefs> + <descriptorRef>startlevel-assembly</descriptorRef> + </descriptorRefs> + </configuration> + </execution> + </executions> + </plugin> + </plugins> + </pluginManagement> + </build> + + <modules> + <module>startlevel-1</module> + <module>startlevel-2</module> + <module>startlevel-3</module> + <module>distribution</module> + </modules> + +</project> Added: core3/gui-distribution/trunk/startlevel-1/pom.xml =================================================================== --- core3/gui-distribution/trunk/startlevel-1/pom.xml (rev 0) +++ core3/gui-distribution/trunk/startlevel-1/pom.xml 2011-01-07 22:03:18 UTC (rev 23354) @@ -0,0 +1,40 @@ +<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>gui-distribution</artifactId> + <version>1.0-SNAPSHOT</version> + </parent> + + <modelVersion>4.0.0</modelVersion> + <groupId>org.cytoscape.gui-distribution</groupId> + <artifactId>startlevel-1</artifactId> + <version>1.0-SNAPSHOT</version> + + <packaging>pom</packaging> + + <name>StartLevel 1 Bundles</name> + + <build> + <plugins> + <plugin> + <artifactId>maven-assembly-plugin</artifactId> + </plugin> + </plugins> + </build> + + <dependencies> + <dependency> + <groupId>org.apache.felix</groupId> + <artifactId>org.apache.felix.configadmin</artifactId> + <version>1.0.4</version> + </dependency> + <dependency> + <groupId>org.ops4j.pax.confman</groupId> + <artifactId>pax-confman-propsloader</artifactId> + <version>0.2.2</version> + </dependency> + </dependencies> + +</project> Added: core3/gui-distribution/trunk/startlevel-2/pom.xml =================================================================== --- core3/gui-distribution/trunk/startlevel-2/pom.xml (rev 0) +++ core3/gui-distribution/trunk/startlevel-2/pom.xml 2011-01-07 22:03:18 UTC (rev 23354) @@ -0,0 +1,45 @@ +<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>gui-distribution</artifactId> + <version>1.0-SNAPSHOT</version> + </parent> + + <modelVersion>4.0.0</modelVersion> + <groupId>org.cytoscape.gui-distribution</groupId> + <artifactId>startlevel-2</artifactId> + <version>1.0-SNAPSHOT</version> + + <packaging>pom</packaging> + + <name>StartLevel 2 Bundles</name> + + <build> + <plugins> + <plugin> + <artifactId>maven-assembly-plugin</artifactId> + </plugin> + </plugins> + </build> + + <dependencies> + <dependency> + <groupId>org.ops4j.pax.logging</groupId> + <artifactId>pax-logging-api</artifactId> + <version>1.5.2</version> + </dependency> + <dependency> + <groupId>org.ops4j.pax.logging</groupId> + <artifactId>pax-logging-service</artifactId> + <version>1.5.2</version> + </dependency> + <dependency> + <groupId>org.apache.felix</groupId> + <artifactId>org.apache.felix.eventadmin</artifactId> + <version>1.0.0</version> + </dependency> + </dependencies> + +</project> Added: core3/gui-distribution/trunk/startlevel-3/pom.xml =================================================================== --- core3/gui-distribution/trunk/startlevel-3/pom.xml (rev 0) +++ core3/gui-distribution/trunk/startlevel-3/pom.xml 2011-01-07 22:03:18 UTC (rev 23354) @@ -0,0 +1,470 @@ +<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>gui-distribution</artifactId> + <version>1.0-SNAPSHOT</version> + </parent> + + <modelVersion>4.0.0</modelVersion> + <groupId>org.cytoscape.gui-distribution</groupId> + <artifactId>startlevel-3</artifactId> + <version>1.0-SNAPSHOT</version> + + <packaging>pom</packaging> + + <name>StartLevel 3 Bundles</name> + + <build> + <plugins> + <plugin> + <artifactId>maven-assembly-plugin</artifactId> + </plugin> + </plugins> + </build> + + <dependencies> + + <!-- Spring Framework Bundles --> + <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.aspectj</groupId> + <artifactId>com.springsource.org.aspectj.weaver + </artifactId> + <version>1.6.3.RELEASE</version> + </dependency> + <dependency> + <groupId>org.aspectj</groupId> + <artifactId>com.springsource.org.aspectj.runtime + </artifactId> + <version>1.6.3.RELEASE</version> + </dependency> + + + <!-- 3rd Party Libraries --> + <dependency> + <groupId>com.lowagie.text</groupId> + <artifactId>com.springsource.com.lowagie.text + </artifactId> + <version>2.0.8</version> + </dependency> + + + <!-- Wrapped 3rd Party Libraries --> + <dependency> + <groupId>org.cytoscape.wrappers</groupId> + <artifactId>com.l2fprod.common.sheet + </artifactId> + <version>7.3</version> + </dependency> + <dependency> + <groupId>org.cytoscape.wrappers</groupId> + <artifactId>org.swinglabs.swingx</artifactId> + <version>1.6.1</version> + </dependency> + <dependency> + <groupId>org.cytoscape.wrappers</groupId> + <artifactId>com.l2fprod.common.shared + </artifactId> + <version>7.3</version> + </dependency> + <dependency> + <groupId>org.cytoscape.wrappers</groupId> + <artifactId>com.l2fprod.common.fontchooser + </artifactId> + <version>7.3</version> + </dependency> + + + <!-- Cytoscape API Bundles --> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>table-browser-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>model-api</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>viewmodel-api</artifactId> + <version>3.0.0-alpha3-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>vizmap-api</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>vizmap-gui-api</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>work-api</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>work-swing-api</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>swing-application-api</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>event-api</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>plugin-api</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>dnd-api</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>io-api</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>session-api</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>core-task-api</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>layout-api</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>presentation-api</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>property-api</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + + + <!-- Cytoscape Implementation Bundles --> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>swing-application-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>ding-presentation-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>event-impl</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>model-impl</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>work-swing-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>core-task-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>session-impl</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>io-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>work-spring-hack</artifactId> + <version>3.0.0-alpha1</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>viewmodel-impl</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>vizmap-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>graph-render</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>util-intr</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>spacial</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>equations-api</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>equations-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>vizmap-gui-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>default-mappings</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>log-swing-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>property-impl</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>splash</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>swing-util</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>math-xform</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>manual-layout-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + + <!-- Other dependencies --> + <dependency> + <groupId>cytoscape-sun</groupId> + <artifactId>jhall</artifactId> + <version>1.0</version> + </dependency> + + <dependency> + <groupId>org.apache.commons</groupId> + <artifactId>com.springsource.org.apache.commons.collections</artifactId> + <version>3.2.1</version> + </dependency> + + <!-- Simplified Plugin Support --> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>plugin-impl</artifactId> + <version>3.0.0-alpha2-SNAPSHOT</version> + </dependency> + <!-- A utility that allows you to register services dynamically --> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>service-util</artifactId> + <version>3.0.0-alpha1</version> + </dependency> + <!-- Editor Plugin --> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>editor-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + + <!-- prefuse layouts --> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>layout-prefuse-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + <dependency> + <groupId>cytoscape-temp</groupId> + <artifactId>prefuse</artifactId> + <version>20071021</version> + </dependency> + + + <!-- linkout plugin --> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>linkout-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + + <!-- PSI-MI --> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>psi-mi-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + + <!-- network analyzer --> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>network-analyzer-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + + <!-- Required by plugin manager --> + <dependency> + <groupId>org.cytoscape.wrappers</groupId> + <artifactId>org.apache.lucene</artifactId> + <version>3.0.2</version> + </dependency> + <dependency> + <groupId>org.jdom</groupId> + <artifactId>com.springsource.org.jdom</artifactId> + <version>1.1.0</version> + </dependency> + <dependency> + <groupId>org.cytoscape.wrappers</groupId> + <artifactId>org.swinglabs.swing-layout</artifactId> + <version>1.0.3</version> + </dependency> + + <!-- Ding's custom graphics manager --> + <dependency> + <groupId>org.cytoscape</groupId> + <artifactId>ding-customgraphics-manager-impl</artifactId> + <version>1.0-SNAPSHOT</version> + </dependency> + + <!-- freehep --> + <dependency> + <groupId>cytoscape-temp</groupId> + <artifactId>freehep-graphicsio</artifactId> + <version>2.0</version> + </dependency> + <dependency> + <groupId>cytoscape-temp</groupId> + <artifactId>freehep-graphicsio-svg</artifactId> + <version>2.0</version> + </dependency> + <dependency> + <groupId>cytoscape-temp</groupId> + <artifactId>freehep-graphics2d</artifactId> + <version>2.0</version> + </dependency> + + <!-- jfreechart --> + <dependency> + <groupId>cytoscape-temp</groupId> + <artifactId>jfree-jfreechart</artifactId> + <version>1.0.13</version> + </dependency> + <dependency> + <groupId>cytoscape-temp</groupId> + <artifactId>jfree-jcommon</artifactId> + <version>1.0.15</version> + </dependency> + + <!-- gogo shell --> + <dependency> + <groupId>org.apache.felix</groupId> + <artifactId>org.apache.felix.gogo.command</artifactId> + <version>0.6.1</version> + </dependency> + <dependency> + <groupId>org.apache.felix</groupId> + <artifactId>org.apache.felix.gogo.shell</artifactId> + <version>0.6.1</version> + </dependency> + <dependency> + <groupId>org.apache.felix</groupId> + <artifactId>org.apache.felix.gogo.runtime</artifactId> + <version>0.6.1</version> + </dependency> + + </dependencies> + +</project> -- You received this message because you are subscribed to the Google Groups "cytoscape-cvs" group. 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