Well, I've installed a clean Zimbra 6.x and upgraded a 5.x that's been installed since Zimbra was released and not had any problem with the DSPAM scripts so I don't understand why yours needed tweaking.
The only thing that should be done (
AFAIK) is to set the ownership on the dspam-3.x folders to zimbra:zimbra or run the zmfixperms script. Anyway, you can test zmtrainsa by just running it from the command line as the zimbra user and it should run and terminate normally and you can also check the log file to see whether the cron job ran and ended.