Hi FreeSurfer team,
I'm trying to create a base for 5 time points in freesurfer version 5.1 and have run into issues with my job submission exiting in error. This is the command I originally tried using:
runFreeSurferSinglePBS -N huey.sw -r "-all -base P040_2yr5tp -tp P040b_v0 -tp P040_v6 -tp P040_v12 -tp P040_v18 -tp P040c" -S /project/freesurfer/CNADC_FS/PPA_v5.1.0/ P040_2yr5tp
This resulted in the following error while starting global iteration: 2:
Resolution: 0 S( 256 256 256 ) T( 256 256 256 ) Iteration(f): 1 -- diff. to prev. transform: 0.127011 Iteration(f): 2terminate called after throwing an instance of 'std::bad_alloc' what(): St9bad_alloc
Because this appears to be a memory issue, I tried running it with a new memory parameter, using the following flag per a colleague's recommendation:
runFreeSurferSinglePBS -m 4GB -N huey.sw -r "-all -base P040_2yr5tp -tp P040b_v0 -tp P040_v6 -tp P040_v12 -tp P040_v18 -tp P040c" -S /project/freesurfer/CNADC_FS/PPA_v5.1.0/ P040_2yr5tp
I've also opened each of the 5 time points for this subject and cannot see anything wrong with any of the individual time points.
Any help is greatly appreciated!
Thank you,
Allison Rainford Research Study Assistant Cognitive Neurology and Alzheimer's Disease Center Northwestern University 320 East Superior Street Searle 11-579 Chicago, Illinois 60611 Email: allison.rainford@northwestern.edu