Hi Allison, you have two options:
1. replace the mri_robust_register and mri_robust_template executables with newer ones (but who knows if flags changed, so this may not work directly, in that case also the call in recon-all may need to be adjusted). 2. better: simply run all bases with 5.3 and also all the longitudinal runs with 5.3. I think this should work based on 5.1 cross sectional data (you may want to test in a single case). As long as you do it for all subjects this will be ok. Best, Martin > On Dec 8, 2016, at 3:51 PM, Allison Rainford > <allison.rainf...@northwestern.edu> wrote: > > Hi FreeSurfer team, > > My lab is looking at longitudinal data across 5 time points for each subject. > All of our time points have been edited in version 5.1 for consistency. > However, I have run into an issue when trying to create the bases for these > subjects in this version due to a memory allocation problem. It appears that > 5.1 cannot allocate enough memory to store the temporary files for each of > these time points and consequently errors out during the registration stage > with this message: > > Iteration(f): 2terminate called after throwing an instance of 'std::bad_alloc' > what(): St9bad_alloc > > I also tried creating the base using a memory flag (-m) to allocate more > memory but had no luck in those attempts. > > I tried creating the base in version 5.3 and this ran successfully. However, > because this is a longitudinal data set ran in version 5.1, it’s problematic > that the jobs crash in 5.1. > > Is there anyway to allocate sufficient memory in 5.1? > > 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.rainf...@northwestern.edu > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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