Unable to stop/start SIA Agent - BOBJ XI 3.1 on RedHat Linux

We have the BOBJXI 3.1 installed on the Red Hat Linux Machines(Custom Installation across Two Red Hat Linux Servers).

Node 1 - Linux BOX 1 - Tomcat and all the BOBJ Services except CMS

Node 2 - Linux BOX 2 - MySql and CMS

Problem Description :

We have two instances of the CMS running on the Linux BOX2.

I have assigned the port 6401 to the CMS2 through CMC,The CMS1 is running with deafult port 6400.

CMS is stopped thorugh the CMC.

Through the command line ccm.sh tool on the Linux BOX2,We tried to stop the CMS.

./ccm.sh -stop all or sia agent .The Script is not doing anything .

Unable at start/enable the servers on Node2-Linux BOX 2

./ccm.sh - start all

Message on the Command Prompt:

Starting all the servers...

Failed to Register Name Server:Reason:A Server of this name already exists( STU00188)

./ccm.sh - enable all

Creating Session Manager

Logging into CMS

err: ERROR could not logon to CMS ( STU00152).

err: ERROR Description:The System ..can be contacted but their is no CMS running at port 6401.