You did not tell recon-all to do anything:) Try adding -all to your command line
On 11/13/19 2:10 PM, Dalton Bermudez wrote: > > External Email - Use Caution > > > > ---------- Forwarded message --------- > From: *Dalton Bermudez* <daltonhbermu...@gmail.com > <mailto:daltonhbermu...@gmail.com>> > Date: Wed, Nov 13, 2019 at 1:54 PM > Subject: recon-all error: ltMNIreadEx: could not open file > transforms/talairach.xfm > To: <freesurfer@nmr.mgh.harvard.edu > <mailto:freesurfer@nmr.mgh.harvard.edu>> > > > Dear FreeSurfer Developers, > > I am attempting to obtain a average cortical surface for two > structural MRI nii dataset. However, when I run the command, I obtain > the following errors. > > error: No such file or directory > error: ltMNIreadEx: could not open file transforms/talairach.xfm > error: > mghRead(/home/dbermudez/Documents/subjects/00_0086/mri/orig.mgz, -1): > could not open file > ERROR readMNI: cannot read src MRIorig.mgz > > FreeSurfer version: freesurfer-linux-centos6_x86_64-dev > Platform: Linux Ubuntu 18.05 > recon-all.log: see attachment > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
