Perfect -- thank you for the suggestion. You helped me get past the fact that the script was dying on the second call to the module - no need to reinitialize R each time.

Now I have a new problem, although the program processes each site I still get the following error message for each site processed:
Calculating Stats on site: rs11245203...
Destroying R reference object `205253'
Destroying R reference object `205251'
Destroying R reference object `205252'
Error: could not find function "DESTROY"
Caught error in R::call()

I get statistical calculations for every site, however a memory leak exists that may cause problems with larger files.

Thank you for your help in getting me further, please let me know if you have any more suggestions.

In reply to Re^2: RSPerl and DESTROY by dana
in thread RSPerl and DESTROY by dana

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