External Email - Use Caution Hi Bruce,
My apologizes, I just saw this reply because I didn't realize I had the list on digest mode. I would very much appreciate your help! How/where should I upload the files? Thank you! Damion Hi Damion if you upload the relevant files so that we can replicate this we will fix it cheers Bruce On Wed, 14 Aug 2019, Damion V Demeter wrote: > >* External Email - Use Caution *> >* I am having an issue processing some of my subjects through the HCP pipeline *>* and have no idea what this error means. If anyone could help out, I'd *>* appreciate it! Here is all the info: *> >* 1. Some (not all) of my subjects are getting a segmentation fault error *>* during the post-freesurfer step of the HCP pipeline. Previous subjects were *>* fully processed fine without error (over 100 of them) and are from the same *>* group (all scanner and acquisition settings identical). Here is the *>* segmentation fault error line: *> >* FreeSurfer2CaretConvertAndRegisterNonlinear.sh: line 294: 46979 Segmentation *>* fault mris_convert --annot *>* "$FreeSurferFolder"/label/"$hemisphere"h."$Map".annot *>* "$FreeSurferFolder"/surf/"$hemisphere"h.white"$AtlasSpaceFolder"/"$NativeFolder"/"$Subject"."$Hemisphere"."$Map".native. *>* label.gii *> >* 2. I have narrowed down this error further and have found that it only *>* happens on the right hemisphere aparc.a2009s file. I have manually run the *>* command above for the left and right hemisphere files separately as a test, *>* and the L hemisphere files complete without fail. The R hemisphere, however, *>* always gets this segmentation fault. *> >* This only occurs on certain subjects, but all the files this command is *>* using look good and error free. All previous steps appeared to finish *>* without fail and all expected files were written and can be opened (I'm 99% *>* sure...I might have missed something). I am at a complete loss at how to *>* troubleshoot this further or fix this error. Does anyone have any ideas or *>* solutions? *> >* Thank you! *> > ----- Damion Demeter, MA Doctoral Student UT Austin | Cognitive Neuroscience DCN Lab <https://labs.la.utexas.edu/church-lang/>
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