Hello,
I am working through the tutorial fro FSFAST, and am up to the Preprocessing step. I followed the instructions as indicated and was not receiving errors up until the following command:
preproc-sess -s sess01 -fsd bold -stc up -surface fsaverage lhrh -mni305 -fwhm 5 -per-run
With this command I receive the error after the code runs for a while:
MRISread(/home/fsfast-tutorial.subjects/fsaverage/surf/lh.sphere.reg): could not open file Reading target registration /home/fsfast-tutorial.subjects/fsaverage/surf/lh.sphere.reg No such file or directory ERROR: could not read /home/fsfast-tutorial.subjects/fsaverage/surf/lh.sphere.reg
Checking the fsaverage/surf folder I do not see lh.sphere.reg or rh.sphere.reg. In the fsaverage/surf folder of my freesurfer home subjects, lh.sphere.reg and rh.sphere.reg are present.
My question is: is rh.sphere.reg and lh.sphere.reg something that is created during the tutorial (ie is something wrong with my freesurfer installation that it cannot create these files), or are they simply missing from the tutorial subjects folder?
I downloaded the tutorial package this week, and am using ubuntu 16.04 and freesurfer version 6.
Any help would be greatly appreciated. Thank you.??
It is not created by the tutorial. You will need to create a symlink to fsaverage with cd $SUBJECTS_DIR ln -s $FREESURFER_HOME/subjects/fsaverage
On 2/18/2020 8:00 AM, Parks, Sean wrote:
Hello,
I am working through the tutorial fro FSFAST, and am up to the Preprocessing step. I followed the instructions as indicated and was not receiving errors up until the following command:
preproc-sess -s sess01 -fsd bold -stc up -surface fsaverage lhrh -mni305 -fwhm 5 -per-run
With this command I receive the error after the code runs for a while:
MRISread(/home/fsfast-tutorial.subjects/fsaverage/surf/lh.sphere.reg): could not open file Reading target registration /home/fsfast-tutorial.subjects/fsaverage/surf/lh.sphere.reg No such file or directory ERROR: could not read /home/fsfast-tutorial.subjects/fsaverage/surf/lh.sphere.reg
Checking the fsaverage/surf folder I do not see lh.sphere.reg or rh.sphere.reg. In the fsaverage/surf folder of my freesurfer home subjects, lh.sphere.reg and rh.sphere.reg are present.
My question is: is rh.sphere.reg and lh.sphere.reg something that is created during the tutorial (ie is something wrong with my freesurfer installation that it cannot create these files), or are they simply missing from the tutorial subjects folder?
I downloaded the tutorial package this week, and am using ubuntu 16.04 and freesurfer version 6.
Any help would be greatly appreciated. Thank you.
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freesurfer@nmr.mgh.harvard.edu
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Douglas N. Greve -
Parks, Sean