[Freesurfer] Error during recon-all
Dear FreeSurfer Developers, I was trying to use the command 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 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.
Re: [Freesurfer] Error during recon-all with notal-check on
The lines are as follows Computing Initial Surface Statistics -face loglikelihood: -9.5176 (-4.7588) -vertex loglikelihood: -7.1428 (-3.5714) -normal dot loglikelihood: -3.5493 (-3.5493) -quad curv loglikelihood: -6.1889 (-3.0944) Total Loglikelihood : -26.3985 CORRECTING DEFECT 0 (vertices=237, convex hull=273) After retessellation of defect 0, euler #=-30 (60326,178277,117921) : difference with theory (-37) = -7 CORRECTING DEFECT 1 (vertices=8232, convex hull=2276) normal vector of length zero at vertex 60673 with 0 faces vertex 60673 has 0 face No such file or directory Linux recon-all -s ep183 exited with ERRORS at Wed Oct 10 21:07:00 EDT 2012 Sorry for the multiple emails REgards Dp From: Darshan P To: "freesurfer@nmr.mgh.harvard.edu" Sent: Wednesday, October 31, 2012 12:50 PM Subject: [Freesurfer] Error during recon-all with notal-check on I have a MRI data which has a lesion on the left side . recon-all fails with errors . I was hoping to recover from this error . The last few lines of the log file is as follows' ___ 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.___ 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.
[Freesurfer] Error during recon-all with notal-check on
I have a MRI data which has a lesion on the left side . recon-all fails with errors . I was hoping to recover from this error . The last few lines of the log file is as follows'___ 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.
