Steps that you should follow if you want the thread dump of your StandAlone Java Process
Step 1: Get the Process ID for the shell script calling the java program
linux$ ps -aef | grep "runABCD"
user1 **8535** 4369 0 Mar 25 ? 0:00 /bin/csh /home/user1/runABCD.sh
user1 17796 17372 0 08:15:41 pts/49 0:00 grep runABCD
Step 2: Get the Process ID for the Child which was Invoked by the runABCD. Use the above PID to get the childs.
linux$ ps -aef | grep **8535**
user1 **8536** 8535 0 Mar 25 ? 126:38 /apps/java/jdk/sun4/SunOS5/1.6.0_16/bin/java -cp /home/user1/XYZServer
user1 8535 4369 0 Mar 25 ? 0:00 /bin/csh /home/user1/runABCD.sh
user1 17977 17372 0 08:15:49 pts/49 0:00 grep 8535
Step 3: Get the JSTACK for the particular process. Get the Process id of your XYSServer process. i.e. 8536
linux$ jstack **8536** > threadDump.log