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help > RE: processing fMRI files
Jan 13, 2017 09:01 PM | Douglas Sturim - MIT/LL
RE: processing fMRI files
Thanks Alfonso for the pointers! Yes I re-wrapped this script to be
one job that our SGE (Sun Grid Engine) scripts handle. Conn's
call to SGE's job array is different to the way we run SGE. This
may be co-opting the processing and providing grid collisions,
which are also hard to diagnose. I will back off and run
Conn's native parallel processing and see if that alleviates the
problems.
Thanks again,
Doug
Originally posted by Alfonso Nieto-Castanon:
You mention that you are using parallel processing, the script is only meant for a single subject so I am unsure what exactly you are parallelizing there (also CONN's native parallelization option is turned off in your scripts, by setting batch.parallel.N=0), are you perhaps running the same script in two different computers on the same network? or using Matlab's parallel computing toolbox to run this across multiple processors? let me know. In general if you want to run those preprocessing steps in parallel for multiple subjects you would simply include all of your subjects data into a single CONN
Thanks again,
Doug
Originally posted by Alfonso Nieto-Castanon:
You mention that you are using parallel processing, the script is only meant for a single subject so I am unsure what exactly you are parallelizing there (also CONN's native parallelization option is turned off in your scripts, by setting batch.parallel.N=0), are you perhaps running the same script in two different computers on the same network? or using Matlab's parallel computing toolbox to run this across multiple processors? let me know. In general if you want to run those preprocessing steps in parallel for multiple subjects you would simply include all of your subjects data into a single CONN
Threaded View
| Title | Author | Date |
|---|---|---|
| Douglas Sturim | Jan 9, 2017 | |
| Douglas Sturim | Jan 11, 2017 | |
| Alfonso Nieto-Castanon | Jan 12, 2017 | |
| Douglas Sturim | Jan 13, 2017 | |
| Alfonso Nieto-Castanon | Jan 10, 2017 | |
| Douglas Sturim | Jan 10, 2017 | |