Any chance I could get some help on this? still having this problem > On Apr 20, 2017, at 6:26 PM, Jared P Zimmerman <jar...@mail.med.upenn.edu> > wrote: > > Hi FS Experts, > > I’m having trouble getting anatomical stats from a parcellation I made out of > scanner-space volume ROIs. I have taken the following steps to do this. > > mri_vol2vol --mov myROI.nii.gz --targ orig.mgz --regheader --o > myROI_orig.nii.gz --interp nearest > mris_sample_parc Subj111 lh myROI_orig.nii.gz myROIs.annot -ct > ROI_test_table.txt > On this step I ALWAYS get an error “could not open translation file > /share/apps/freesurfer/5.3.0/cma_parcellation_colors.txt” even though I > specify a CT with -ct, or when I specify a table with -t, or with both > This seems to work though and I can view this annot on the surface with > tksurfer > mris_anatomical_stats -a /path/to/myROIs.annot -b Subj111 lh > > > When I run mris_anatomical_stats I get the following error: > CTABfindAnnotation: ct was NULL > Segmentation fault (core dumped) > > I’m guessing this is from the color-table not being embedded in the annot > file, but I’ve tried to get that embedded in many ways. > > My questions are: > > What is causing the error with mris_anatomical_stats? > What is the difference between the -t and -ct flags for mris_sample_parc and > which should I use? > Should I use a specific color-table for this? I made my own which was just a > space delimited file with “index name r g b a” for all my ROIs, but should I > be adding this data to some existing color-table to make this work? > > Thanks, > Jared > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it is > addressed. If you believe this e-mail was sent to you in error and the e-mail > contains patient information, please contact the Partners Compliance HelpLine > at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail.
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