Add local dependency

Before adding a dependency make sure that it is not available in a Maven repository that could be accessed directly.

1. Copy local jar into local repository directory
   cp dependency.jar cytoscape-wikipathways-app/localRepo/

2. Add line in localsetup.sh file to install dependency locally
   mvn install:install-file -Dfile={path-to-app-directory}/cytoscape-wikipathways-app/localRepo/dependency.jar
   Then run the local setup script.
   ./localsetup.sh

3. Open the pom.xml file to define the new dependency (cytoscape-wikipathways-app/wikipathways.app/pom.xml)

4. Add new dependency in pom.xml file (within the dependencies tag) - groupId = org.pathvisio, artifactId = pathvisio-core, optional has to be true!
   

<dependency>
    <groupId>prefix</groupId>
    <artifactId>jar-name</artifactId>
    <version>version</version>
    <optional>true</optional>
</dependency>

5. Add dependency to Maven shading plugin to make sure it is included in the resulting jar (search for maven-shade-plugin) - add include line to existing configuration artifact set.
   

<configuration>
    <artifactSet>
       <includes>
          **<include>prefix:jar-name</include>**
       </includes>
    </artifactSet>
</configuration>

6. Run Maven install and check output
   mvn install -> [INFO] Including prefix:jar-name:version in the shaded jar.