Hi Brendan, do you really need the full simulation? If you can use the mc-z, then we have a new version of the simulation script that will run in a few minutes using pre-cached simulation tables. You can use this as long as you use a threshold that is either 1.3, 2.0, 2.3, 3.0, 3.3, or 4. This will be standard with version 5. Until we have version 5 is ready, you can download and install the new simulation script and cached tables with:
cd $FREESURFER_HOME/bin mv mri_glmfit-sim mri_glmfit-sim.backup
Get new version from here ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_glmfit-sim
cd $FREESURFER_HOME/average Get this tar file ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mult-comp-cor.tar.gz tar xvfz mult-comp-cor.tar.gz
See mri_glmfit-sess --help for more info.
doug
Brendan Robert Ansell wrote:
Dear FreeSurfer users,
I have attempted to run mc-full for 20 iterations on 18 cores to test the time per iteration. The process is taking more than 14 hours.
It times out at Poll 4725 job 1
How long does each iteration take for mc-full?
We have 8 hemispheres to run, which will total 80,000 iterations.
How many CPUs are required to run mc-full (threshold: 2, iterations: 10000) in a reasonable time period, say 2 weeks?
Any information on the steps involved in the completion of the polling process and subsequent steps would be appreciated.
Thanks in advance,
Brendan Ansell
MNC, Melbourne University
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