Dear Fidel, This is really weird… that’s essentially the last step. I you eg didn’t have writing permissions, you’d get an error. Would it be possible to share the data, so I can try to reproduce the issue on my end? Cheers, /Eugenio
-- Juan Eugenio Iglesias http://www.jeiglesias.com
From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of fidel vila fidelvila@gmail.com Reply-To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Date: Wednesday, March 15, 2023 at 2:29 PM To: "freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] EasyReg usage
External Email - Use Caution Hi, I checked the archive for any pointers about specific use instructions for EasyReg and read the wiki page. I would like to register three T1w acquisitions on three planes (Axial, Cor, Sagittal). This was my first attempt: mri_easyreg --ref [myimageAXIAL.nii] --flo [myimageCOR] --ref_seg [filename_tobecreate_seg_not_runpreviously] --flo_seg /[filename_tobecreate_seg_not_runpreviously] --ref_reg /[filename_tobecreate]
The command run and did generate the segmentation files but froze here:
Deforming and writing to disk
Computing backward field
Deforming reference image
Saving deformed reference image I could not find a log file. Any suggestions? My plan was to use EasyReg on this registered image and register it to the Saggital acquisition, but maybe there is a way to do that registration at once? thanks for any pointers and for putting together such amazing tools, Fidel