Nope, sorry about that. The reason for keeping them separate is that the middle step is running bedpostx. It's the lengthiest step and we typically run it on a cluster. When run on a cluster it's parallelized by slice, and the other 2 steps are parallelized by subject. One could try to queue up everything at once but it'd get crazy and probably cause more confusion than it solves. Not the most elegant solution, I know...
On Thu, 8 Dec 2011, Scott Hayes wrote:
Hi, I'm new to tracula, but I'm wondering if I'm overlooking or misunderstanding the flags. It appears that one types in the trac-all command 3 times to process a subject (or group of subjects)
trac-all -prep -c ConfigFile trac-all -bedp -c ConfigFile trac-all -path -c ConfigFile
Is there a way to specify all three steps w/ one command? That is, could I specify:
trac-all -all -C ConfigFile
(I don't see it stated in the help, but maybe it's implicitly understood to work this way?)
Thanks for your guidance. Best, Scott _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer