Hello all,
I've been running trac-all from the command line without the configuration file since I'm not changing any defaults. I've successfully run several subjects through the trac-all -prep stage, and the -bedp stage. **Although I never got the "trac-all -bedp finished without error" prompt in the -bedp terminal output and usually just get something that says at the end:
../freesurfer_6.0/bin/bedpost_mgh: line 440: 46773 Terminated ${subjdir}.bedpostX/monitor
OR it'll make it to something like...
37 slices processed 38 slices processed Queuing post processing stage 46 slices processed
...and that's as far as the output in the terminal goes.
It appears all the expected files have been created in dmri.bedpostx/ so I was assuming this step had been completed. However, when I go to run the -paths step I get an error that says:
Loading DWIs from /bigraid-03/LS/OtherStudies/larson_buffalo/MRI7/KAward/CWEIS_DTI/sub243/dmri/dwi.nii.gz Loading mask from /bigraid-03/LS/OtherStudies/larson_buffalo/MRI7/KAward/CWEIS_DTI/sub243/sub243/dlabel/diff/aparc+aseg_mask.bbr.nii.gz Loading BEDPOST parameter samples from /bigraid-03/LS/OtherStudies/larson_buffalo/MRI7/KAward/CWEIS_DTI/sub243/sub243/dmri.bedpostX Loading b-values from /bigraid-03/LS/OtherStudies/larson_buffalo/MRI7/KAward/CWEIS_DTI/sub243/sub243/dmri/bvals Loading gradients from /bigraid-03/LS/OtherStudies/larson_buffalo/MRI7/KAward/CWEIS_DTI/sub243/sub243/dmri/bvecs INFO: Found 3 baseline images (b = 0) out of a total of 38 frames Segmentation fault Linux compute-026.mortimer 2.6.32-696.18.7.e16.x86_64 #1 SMP Thu Jan 4 17:31:22 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux
trac-paths exited with ERRORS at Tue Jan 9 09:34:58 CST 2018
I've checked the mask and it looks fine. I can't imagine the bvals and bvecs files should be the issue since I already made it through the -prep stage. Is it something with my bedpost outputs??
Thanks for your help!
Carissa