23 Feb
2016
23 Feb
'16
9:42 a.m.
On 2/23/16 9:39 AM, Maheen Siddiqui wrote:
It seems to be giving me an error and saying it cannot read the seghead.mgz file.
Is it in the same directory where you are running the command? If so, what is the terminal output?
From my earlier question; do you know how to check if lh.seghead is corrupted?
If you can view it in tksurfer/freeview, then it is probably not corrupted. I vaguely remember that there was some problem reading this file in matlab, but I don't remember every coming up with a fix
On Tue, Feb 23, 2016 at 2:30 PM, Douglas Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
you can try mri_binarize --i seghead.mgz --min 0.5 --surf lh.seghead --surf-smooth 10 On 2/23/16 9:22 AM, Maheen Siddiqui wrote:Is it possible to use a different function? Can I use mri_vol2surf on the seghead.mgz file? Or do you think that mkheadsurf is the right one to be using? Thanks!! On Tue, Feb 23, 2016 at 2:18 PM, Douglas Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote: Can you load it in tksurfer or freeview? On 2/23/16 8:58 AM, Maheen Siddiqui wrote:Hi FreeSurfer users, I have used the "mkheadsurf" command to create a head surface for my subject. However when I try to use "read_surf" to read the "lh.seghead" file that is created, the magic number is not one that is recognised. Having read some previous posts/questions with similar problem/error, I think the problem is probably within the "lh.seghead" file. I think someone wrote that incompatibility of the magic number means that the surface is corrupted. Is there a way to check errors of mkheadsurf? Or whether something is wrong? It looked fine in freeview. Does anybody have any advice? Thanks, Maheen _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto: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 <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto: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.
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