Author: mes
Date: 2010-11-18 14:53:43 -0800 (Thu, 18 Nov 2010)
New Revision: 22909
Added:
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/pom.xml
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/assembly/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/assembly/src.xml
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/java/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/java/cytoscape/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/java/cytoscape/genomespace/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/java/cytoscape/genomespace/libs/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/java/cytoscape/genomespace/libs/GenomeSpaceLibsPlugin.java
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/resources/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/resources/cytoscape/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/resources/cytoscape/genomespace/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/resources/cytoscape/genomespace/libs/
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/resources/cytoscape/genomespace/libs/plugin.props
Log:
added genomespace libs
Added: csplugins/trunk/ucsd/mes/genomespace-libs-plugin/pom.xml
===================================================================
--- csplugins/trunk/ucsd/mes/genomespace-libs-plugin/pom.xml
(rev 0)
+++ csplugins/trunk/ucsd/mes/genomespace-libs-plugin/pom.xml 2010-11-18
22:53:43 UTC (rev 22909)
@@ -0,0 +1,160 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<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/xsd/maven-4.0.0.xsd";>
+ <modelVersion>4.0.0</modelVersion>
+
+ <groupId>cytoscape</groupId>
+ <artifactId>genomespace-libs-plugin</artifactId>
+ <version>1.0-SNAPSHOT</version>
+ <packaging>jar</packaging>
+ <name>GenomeSpace Libraries Plugin</name>
+
+ <build>
+ <plugins>
+ <plugin>
+ <groupId>org.apache.maven.plugins</groupId>
+ <artifactId>maven-compiler-plugin</artifactId>
+ <configuration>
+ <source>1.6</source>
+ <target>1.6</target>
+ <optimize>true</optimize>
+ <showWarnings>true</showWarnings>
+ <showDeprecation>true</showDeprecation>
+ </configuration>
+ </plugin>
+ <plugin>
+ <artifactId>maven-assembly-plugin</artifactId>
+ <version>2.2-beta-5</version>
+ <configuration>
+ <archive>
+ <manifestEntries>
+
<Cytoscape-Plugin>cytoscape.genomespace.libs.GenomeSpaceLibsPlugin</Cytoscape-Plugin>
+ </manifestEntries>
+ </archive>
+ <descriptors>
+ <descriptor>src/main/assembly/src.xml</descriptor>
+ </descriptors>
+ </configuration>
+ <executions>
+ <execution>
+ <id>make-assembly</id>
+ <phase>package</phase>
+ <goals>
+ <goal>single</goal>
+ </goals>
+ </execution>
+ </executions>
+ </plugin>
+ </plugins>
+ </build>
+
+ <dependencies>
+ <dependency>
+ <groupId>cytoscape</groupId>
+ <artifactId>application</artifactId>
+ <version>2.8.0-beta4-SNAPSHOT</version>
+ <scope>provided</scope>
+ </dependency>
+ <dependency>
+ <groupId>commons-codec</groupId>
+ <artifactId>commons-codec</artifactId>
+ <version>1.4</version>
+ </dependency>
+ <dependency>
+ <groupId>commons-httpclient</groupId>
+ <artifactId>commons-httpclient</artifactId>
+ <version>3.1</version>
+ </dependency>
+ <dependency>
+ <groupId>commons-io</groupId>
+ <artifactId>commons-io</artifactId>
+ <version>1.4</version>
+ </dependency>
+ <dependency>
+ <groupId>commons-lang</groupId>
+ <artifactId>commons-lang</artifactId>
+ <version>2.5</version>
+ </dependency>
+ <dependency>
+ <groupId>commons-logging</groupId>
+ <artifactId>commons-logging</artifactId>
+ <version>1.1.1</version>
+ </dependency>
+ <dependency>
+ <groupId>commons-logging</groupId>
+ <artifactId>commons-logging</artifactId>
+ <version>1.1.1</version>
+ </dependency>
+ <dependency>
+ <groupId>log4j</groupId>
+ <artifactId>log4j</artifactId>
+ <version>1.2.16</version>
+ </dependency>
+ <dependency>
+ <groupId>net.java.dev.jets3t</groupId>
+ <artifactId>jets3t</artifactId>
+ <version>0.7.4</version>
+ </dependency>
+ <dependency>
+ <groupId>org.codehaus.jettison</groupId>
+ <artifactId>jettison</artifactId>
+ <version>1.1</version>
+ </dependency>
+ <dependency>
+ <groupId>com.sun.jersey</groupId>
+ <artifactId>jersey-core</artifactId>
+ <version>1.2</version>
+ </dependency>
+ <dependency>
+ <groupId>com.sun.jersey</groupId>
+ <artifactId>jersey-client</artifactId>
+ <version>1.2</version>
+ </dependency>
+ <dependency>
+ <groupId>javax.ws.rs</groupId>
+ <artifactId>jsr311-api</artifactId>
+ <version>1.1.1</version>
+ </dependency>
+ </dependencies>
+
+ <repositories>
+ <repository>
+ <id>java.net</id>
+ <name>Java.net</name>
+ <url>http://download.java.net/maven/2/</url>
+ </repository>
+ <repository>
+ <id>cytoscape_snapshots</id>
+ <snapshots>
+ <enabled>true</enabled>
+ </snapshots>
+ <releases>
+ <enabled>false</enabled>
+ </releases>
+ <name>Cytoscape Snapshots</name>
+
<url>http://cytoscape.wodaklab.org/nexus/content/repositories/snapshots/</url>
+ </repository>
+ <repository>
+ <id>cytoscape_releases</id>
+ <snapshots>
+ <enabled>false</enabled>
+ </snapshots>
+ <releases>
+ <enabled>true</enabled>
+ </releases>
+ <name>Cytoscape Releases</name>
+
<url>http://cytoscape.wodaklab.org/nexus/content/repositories/releases/</url>
+ </repository>
+ <repository>
+ <id>cytoscape_thirdparty</id>
+ <snapshots>
+ <enabled>false</enabled>
+ </snapshots>
+ <releases>
+ <enabled>true</enabled>
+ </releases>
+ <name>Cytoscape Third Party</name>
+
<url>http://cytoscape.wodaklab.org/nexus/content/repositories/thirdparty/</url>
+ </repository>
+ </repositories>
+
+</project>
Added:
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/assembly/src.xml
===================================================================
--- csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/assembly/src.xml
(rev 0)
+++ csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/assembly/src.xml
2010-11-18 22:53:43 UTC (rev 22909)
@@ -0,0 +1,18 @@
+<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";>
+ <id>jar-with-dependencies</id>
+ <formats>
+ <format>jar</format>
+ </formats>
+ <includeBaseDirectory>false</includeBaseDirectory>
+ <dependencySets>
+ <dependencySet>
+ <outputDirectory>/</outputDirectory>
+ <useProjectArtifact>true</useProjectArtifact>
+ <unpack>true</unpack>
+ <scope>runtime</scope>
+ <useTransitiveDependencies>false</useTransitiveDependencies>
+ </dependencySet>
+ </dependencySets>
+</assembly>
Added:
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/java/cytoscape/genomespace/libs/GenomeSpaceLibsPlugin.java
===================================================================
---
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/java/cytoscape/genomespace/libs/GenomeSpaceLibsPlugin.java
(rev 0)
+++
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/java/cytoscape/genomespace/libs/GenomeSpaceLibsPlugin.java
2010-11-18 22:53:43 UTC (rev 22909)
@@ -0,0 +1,14 @@
+package cytoscape.genomespace.libs;
+
+import cytoscape.plugin.CytoscapePlugin;
+
+
+/**
+ * A nothing plugin that only exists to establish the libraries
+ * included in this plugin in the Cytoscape classloader.
+ */
+public class GenomeSpaceLibsPlugin extends CytoscapePlugin {
+ public GenomeSpaceLibsPlugin() {
+ super();
+ }
+}
Added:
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/resources/cytoscape/genomespace/libs/plugin.props
===================================================================
---
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/resources/cytoscape/genomespace/libs/plugin.props
(rev 0)
+++
csplugins/trunk/ucsd/mes/genomespace-libs-plugin/src/main/resources/cytoscape/genomespace/libs/plugin.props
2010-11-18 22:53:43 UTC (rev 22909)
@@ -0,0 +1,26 @@
+# This props file would be filled out and included in the plugin jar file.
+# This props file will be used to put information into the Plugin Manager
+# about the plugin
+
+# -- The following properties are REQUIRED -- #
+
+# The plugin name that will be displayed to users
+pluginName=GenomeSpaceLibsPlugin
+
+# Description used to give users information about the plugin such as what it
does.
+# Html tags are encouraged for formatting purposes.
+pluginDescription=GenomeSpace Libraries Plugin
+
+# Plugin version number, this must be two numbers separated by a decimlal.
Ex. 0.2, 14.03
+pluginVersion=0.1
+
+# Compatible Cytoscape version
+cytoscapeVersion=2.8
+
+# Category, use one of the categories listed on the website or create your own
+pluginCategory=Other
+
+# List of authors. Note each author and institution pair are separated by a :
(colon)
+# each additional author institution pair must be separated from other pairs
bye a ; (semicolon)
+pluginAuthorsIntsitutions=Mike Smoot:UCSD
+
--
You received this message because you are subscribed to the Google Groups
"cytoscape-cvs" group.
To post to this group, send email to [email protected].
To unsubscribe from this group, send email to
[email protected].
For more options, visit this group at
http://groups.google.com/group/cytoscape-cvs?hl=en.
