In order to programmatically backup your data full or subsequently incremental from a JVM based program, you need to write Java code like

OnlineBackup backup = OnlineBackup.from( InetAddress.getLocalHost().getHostAddress() );
backup.full( backupPath.getPath() );
backup.incremental( backupPath.getPath() );

For more information, please see the Javadocs for OnlineBackup