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See also Setting up and running FreeSurfer from CSPM and Display Problems.

Missing files on Analyze ("Couldn't open .../subjects/anat_5020/surf/lh.thickness.fwhm10.fsaverage.mgz")

Several postings on forum (here's one link): 

You need to run
recon-all -s subject -qcache
doug

Create a nifti file from FreeSurfer format

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