External Email - Use Caution Hi Bruce, I am just following up on this. Were you able to get mri_normalize to run on this mp2rage data?
Thanks, Corinna On Wed, May 5, 2021 at 6:50 PM Corinna Bauer <corinna...@gmail.com> wrote: > Great, thanks. The nu.mgz is attached. > > Corinna > > On Wed, May 5, 2021 at 6:47 PM Fischl, Bruce <bfis...@mgh.harvard.edu> > wrote: > >> Hmmmm, if you send us the data we will take a look. Just the inputs to >> mri_normalize should do it for this case >> >> Cheers >> >> Bruce >> >> >> >> *From:* freesurfer-boun...@nmr.mgh.harvard.edu < >> freesurfer-boun...@nmr.mgh.harvard.edu> *On Behalf Of *Corinna Bauer >> *Sent:* Wednesday, May 5, 2021 6:45 PM >> *To:* Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> >> *Subject:* Re: [Freesurfer] error at 3d normalization pass 1 of 2 stage >> with MP2RAGE data >> >> >> >> * External Email - Use Caution * >> >> Hi Bruce, >> >> >> >> The nu.mgz input into mri_normalize looks ok to me (screenshot attached), >> as does the talairach registration. >> >> >> >> Corinna >> >> >> >> On Wed, May 5, 2021 at 5:39 PM Fischl, Bruce <bfis...@mgh.harvard.edu> >> wrote: >> >> Can you take a look at the volume that was the input to mri_normalize and >> see if it looks ok? And check the talairach >> >> >> >> *From:* freesurfer-boun...@nmr.mgh.harvard.edu < >> freesurfer-boun...@nmr.mgh.harvard.edu> *On Behalf Of *Corinna Bauer >> *Sent:* Wednesday, May 5, 2021 5:25 PM >> *To:* Mailing Freesurfer List <freesurfer@nmr.mgh.harvard.edu> >> *Subject:* [Freesurfer] error at 3d normalization pass 1 of 2 stage with >> MP2RAGE data >> >> >> >> * External Email - Use Caution * >> >> Hello all, >> >> >> >> I am trying to run recon-all on MP2RAGE data from Philips and it exits >> with errors at this point: >> >> 3d normalization pass 1 of 2 >> error: No such file or directory >> error: MRInormFindControlPoints: could not find enough control points >> >> error: No such file or directory >> error: MRInormFindControlPoints failed >> Command exited with non-zero status 253 >> >> >> >> The log file is attached. The input file was the MPRAGE generated on the >> scanner console (i.e. not the T1 map). I attached a screenshot of orig.mgz >> viewed in fsleyes. 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