What version of freesurfer are you using? My guess is 5.3 or earlier? With pre v6.0 versions of freesurfer, the Talairach transform step will fail at the mri_nu_correct.mni command on newer Linux distributions that come with perl version 5.22 (and higher) due to an incompatibility with the mni tools shipped with FreeSurfer and newer versions of perl. The issue has been fixed in version 6.0.
On 04/05/2017 05:12 PM, Das S. wrote: > Dear Freesurfer Developers, > I was trying to use the recon-all -autorecon1 -subjid bert and got an error. > When I checked I found the error was coming while executing the below command: > nu_correct -clobber ./tmp.mri_nu_correct.mni.7555/nu0.mnc > ./tmp.mri_nu_correct.mni.7555/nu1.mnc -tmpdir > ./tmp.mri_nu_correct.mni.7555/0/ -iterations 1000 -distance 50 > > When I executed the command separately I got below error message: > > Can't use 'defined(@array)' (Maybe you should just omit the defined()?) at > /usr/local/freesurfer/mni/bin/nu_estimate_np_and_em line 165. > nu_correct: crashed while running nu_estimate_np_and_em (termination > status=65280) > ERROR: nu_correct > > > Can you please suggest why the error is coming and how to remove it. > Many thanks > Sarbani > > _______________________________________________ > 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 The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
