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Hello,
We are getting the error below for every subject when we run recon-all-clinical. It's only for the rh, not the lh. We are using Freesufer 7.4.1 with the synthseg python script.
Let me know if there is a fix/update/patch for this.
Thanks, Melissa
ERROR: cannot find or read /usr/local/freesurfer/dev/average/colortable_BA.txt ERROR: cannot find or read /usr/local/freesurfer/dev/average/colortable_BA.txt computing statistics for each annotation in ./rh.BA_exvivo.annot. reading volume /data/recon-all-clinical/3CAMC005746_125300857_20240220/mri/wm.mgz... reading input surface /data/recon-all-clinical/3CAMC005746_125300857_20240220/surf/rh.white... reading input pial surface /data/recon-all-clinical/3CAMC005746_125300857_20240220/surf/rh.pial... reading input white surface /data/recon-all-clinical/3CAMC005746_125300857_20240220/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 183858 Total vertex volume 183685 (mask=0) error: No such file or directory error: could not read annot file ./rh.BA_exvivo.annot error: No such file or directory error: mris_anatomical_stats: could not read annotation file ./rh.BA_exvivo.annot computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot. reading volume /data/recon-all-clinical/3CAMC005746_125300857_20240220/mri/wm.mgz... reading input surface /data/recon-all-clinical/3CAMC005746_125300857_20240220/surf/rh.white... reading input pial surface /data/recon-all-clinical/3CAMC005746_125300857_20240220/surf/rh.pial... reading input white surface /data/recon-all-clinical/3CAMC005746_125300857_20240220/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 183858 Total vertex volume 183685 (mask=0) error: No such file or directory error: could not read annot file ./rh.BA_exvivo.thresh.annot error: No such file or directory error: mris_anatomical_stats: could not read annotation file ./rh.BA_exvivo.thresh.annot All done!
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