I'm interested in running the TPP from the linux command line for a few 
reasons (flexibility + using the computing power of our linux server, the 
administers of which aren't keen on an apache webserver).

I can get some of the individual programs and scripts to run, but I'm 
struggling with some others (eg PeptideProphet and iProphet). Are there any 
examples of command line uses of TPP around that I can use to guide myself?

Many thanks,
Alastair
Max-Planck Institute for Molecular Plant Physiology

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