Re: [Freesurfer] TRACULA -bedp parallel processing

2022-07-18 Thread King-Wai Chu
External Email - Use Caution Hi Ela, I ran into the exact same problem. Here is how I fix it. 1) edit pre.Parallel.docx bedpostx_preproc.sh takes 2 arguments. Add a 2nd argument 0 at the end bedpostx_preproc.sh /home2/am2359/fs6_data/TRACULA/subjects_dir/57/dmri 0 bedpostx_prep

Re: [Freesurfer] aseg.presurf edits are undone or incomplete when brainmask.mgz edits are involved

2022-07-18 Thread Keefe, Sarah
External Email - Use Caution Hi, Following up on this - has anyone had a chance to look at it? Looking at my sent emails in this thread and the quoted text in them, I'm not 100% sure my previous email went through correctly. To confirm, we are DEFINITELY making our edits to aseg.

[Freesurfer] segment_subregions stats files missing?

2022-07-18 Thread Alvarado, Luis
External Email - Use Caution Hi all, I ran the segment_subregions thalamus --cross on some of my subjects but I cannot find the *.stats files in the stats folder. I was wondering if I am missing something? I need the *.stats files to aggregate the results via asegstats2table to