Hi,
I'm a newcomer to Freesurfer and I'm having problems trying to create
an average subject from a subset of our patients. I used the command
"make_average_surface --fsgd y.fsgd" with y.fsgd basically being a copy
of an old fsgd file with a few subjects deleted. The process ran for
several hours (I had to let it run over the weekend) and seemed to be
processing the 12 subjects that I wanted. However when I tried to open it
today with "tksurfer 12AboveChanceAvg lh inflated", I get the following
message:
surfer: current subjects dir: /space/sake/3/users/inverse/subjects
surfer: not in "scripts" dir ==> using cwd for session root
surfer: session root data dir ($session) set to:
surfer: /autofs/homes/006/nitenson
ERROR: could not read header info from T1 or orig in
/space/sake/3/users/inverse/subjects/12AboveChanceAvg/mri
I noticed that the mri folder in the new average I created only has one
mgz file (mni305.cor.mgz) while the mri folder in fsaverage has many more.
I am currently running make_average_subject --fsgd y.fsgd, but it seems
that it's starting to produce the same results.
What is the best way to create an average subject on which to study
functional overlays?
Thanks,
Adam Nitenson
Brain Genomic Lab
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