Build the application and the distribution zip file with the build.sh file. It simply runs mvn clean assembly:assembly. That will result in a zip file in the target folder that can be uploaded to Java SE CS.
On successful build, you can run the app with sh target/bin/start which is a shell script generated by the Maven build that constructs the correct classpath to dependencies in target/repo.
Edit config.properties to set your target server, user id, password, and identity domain
Deploy the application archive using deploy.sh. This will create the service instance and deploy.
Once a service instance has been created, updated archives are deployed