Version Conflicts utility failed

Mohan pinged me about one issue in R12 upgrade.  He had successfully installed R12 on DB node and primary node file system.  However he was facing issues on secondary node.

This was a shared application file system.  This was the error:

RW-50016: Error: - APPL_TOP environment file was not created:
File = /R12/appl/apps_st/R12appl/$CONTEXT_NAME.env
ADOVARS environment file passes instantiated variables test:
File = $APPL_TOP/admin/adovars.env

APPSCONFIG passes instantiated variables test:
File = $APPL_TOP/admin/adconfig.txt

in autoconfig log file is see this error

Starting AutoConfig at Thu Feb 5 13:22:01 2009
Using adconfig.pl version 120.16.12000000.8

Classpath : $OA_JAVA/lib/appsborg2.zip:$OA_JAVA/classes

ERROR: Version Conflicts utility failed.
Terminate.

A quick search on metalink yielded note 559806.1

Here are the steps for the workaround:
1. Do the installation using the setting that you require. This will fail due to the bug. (if you have a current failed installation then use that)
2. Copy the config file ($INST_TOP/conf_.txt) from the failed Installation file to a different location and modify the s_javatop variable with the correct value :
For example :
change from:
s_javatop=/u00/TEST/apps/apps_st/comn/java/classes
to:
s_javatop=/u00/TEST/maxcomn/java/classes

(Change other variables if they are incorrect if any)

3. Delete the failed install but preserve the modified conf_.txt . ie delete evrything but the altered config file.
4. Point the /etc/oraInst.loc to a new location to create a new oraInventory, or delete if you are using a single oraInventory for each installation. If this is the only installation on this Node then delete the current oraInventory.
5. Install using the modified config file as follows :
rapidwiz -silent -config .txt
For Example :
$ rapidwiz -silent -config /u00/TEST/conf_TEST.txt

The current s_javatop in config file was
/R12/appl/apps_st/apps/apps_st/comn/java/classes

This was changed to

/R12/appl/apps_st/R12comn/java/classes

Mohan said that it is really a bug.  He had checked config file for the other two nodes and s_javatop was correctly set on those,  but for 3rd node it is set differently

Mohan deleted the sid_host directory from inst_top and started rapidwiz

It ran fine and generated the env file.