Hi All,
Upon trying to assembly my subjects into a single surface space, I got the following error:
*ERROR: number of vertices in /media/AMMONIS/fsSubjects/AR_normals/C42/surf/lh.thickness does not match surface (142271,140585) ERROR: reading curvature file * I then tried to perform recon-all -make all, but got this error:
*ERROR: mpr2mni305 failed, see transforms/talairach_avi.log*
In the .log, I got this:
*-7.5000 22.5000 15.0000 2793.2134 1Segmentation fault ERROR: 'imgreg_4dfp /usr/rapps/freesurfer/average/711-2C_as_mni_average_305 /usr/rapps/freesurfer/average/711-2B_as_mni_average_305_mask talsrcimg_g11 none talsrcimg_to_711-2C_as_mni_average_305_t4 4355' failed! status=139 ERROR: mpr2mni305 execution aborted*
Which is a segmentation fault. Can anyone help me fix this?
Thanks, Allie Rosen, MSc Candidate Graduate Student, Department of Neurosurgery Toronto Western Hospital 14-327 399 Bathurst St. University of Toronto
Hi Allie,
what do you mean by "trying to assemble my subjects into a single surface space"?
thanks Bruce On Tue, 12 Apr 2011, Allie Rosen wrote:
Hi All,
Upon trying to assembly my subjects into a single surface space, I got the following error:
*ERROR: number of vertices in /media/AMMONIS/fsSubjects/AR_normals/C42/surf/lh.thickness does not match surface (142271,140585) ERROR: reading curvature file
I then tried to perform recon-all -make all, but got this error:
*ERROR: mpr2mni305 failed, see transforms/talairach_avi.log*
In the .log, I got this:
*-7.5000 22.5000 15.0000 2793.2134 1Segmentation fault ERROR: 'imgreg_4dfp /usr/rapps/freesurfer/average/711-2C_as_mni_average_305 /usr/rapps/freesurfer/average/711-2B_as_mni_average_305_mask talsrcimg_g11 none talsrcimg_to_711-2C_as_mni_average_305_t4 4355' failed! status=139 ERROR: mpr2mni305 execution aborted*
Which is a segmentation fault. Can anyone help me fix this?
Thanks, Allie Rosen, MSc Candidate Graduate Student, Department of Neurosurgery Toronto Western Hospital 14-327 399 Bathurst St. University of Toronto
Hi Bruce,
I mean the "mris_preproc" step.
Thanks, Allie
(forgot to reply to all)
On Tue, Apr 12, 2011 at 11:35 AM, Bruce Fischl fischl@nmr.mgh.harvard.eduwrote:
Hi Allie,
what do you mean by "trying to assemble my subjects into a single surface space"?
thanks Bruce
On Tue, 12 Apr 2011, Allie Rosen wrote:
Hi All,
Upon trying to assembly my subjects into a single surface space, I got the following error:
*ERROR: number of vertices in /media/AMMONIS/fsSubjects/AR_normals/C42/surf/lh.thickness does not match surface (142271,140585) ERROR: reading curvature file
I then tried to perform recon-all -make all, but got this error:
*ERROR: mpr2mni305 failed, see transforms/talairach_avi.log*
In the .log, I got this:
*-7.5000 22.5000 15.0000 2793.2134 1Segmentation fault ERROR: 'imgreg_4dfp /usr/rapps/freesurfer/average/711-2C_as_mni_average_305 /usr/rapps/freesurfer/average/711-2B_as_mni_average_305_mask talsrcimg_g11 none talsrcimg_to_711-2C_as_mni_average_305_t4 4355' failed! status=139 ERROR: mpr2mni305 execution aborted*
Which is a segmentation fault. Can anyone help me fix this?
Thanks, Allie Rosen, MSc Candidate Graduate Student, Department of Neurosurgery Toronto Western Hospital 14-327 399 Bathurst St. University of Toronto
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.
It usually means that you have a subject whose surfaces are out-of-synch. This usually happens when you've made edits, launched recon-all, but then then recon-all does not finish for some reason. Check the time stamps on that subject or try running recon-all -make all -s subject
doug
btw, a "Segmentation Fault" is a computer term and does not have anything to do with brain segmentation.
Allie Rosen wrote:
Hi Bruce,
I mean the "mris_preproc" step.
Thanks, Allie
(forgot to reply to all)
On Tue, Apr 12, 2011 at 11:35 AM, Bruce Fischl <fischl@nmr.mgh.harvard.edu mailto:fischl@nmr.mgh.harvard.edu> wrote:
Hi Allie, what do you mean by "trying to assemble my subjects into a single surface space"? thanks Bruce On Tue, 12 Apr 2011, Allie Rosen wrote: Hi All, Upon trying to assembly my subjects into a single surface space, I got the following error: *ERROR: number of vertices in /media/AMMONIS/fsSubjects/AR_normals/C42/surf/lh.thickness does not match surface (142271,140585) ERROR: reading curvature file * I then tried to perform recon-all -make all, but got this error: *ERROR: mpr2mni305 failed, see transforms/talairach_avi.log* In the .log, I got this: *-7.5000 22.5000 15.0000 2793.2134 1Segmentation fault ERROR: 'imgreg_4dfp /usr/rapps/freesurfer/average/711-2C_as_mni_average_305 /usr/rapps/freesurfer/average/711-2B_as_mni_average_305_mask talsrcimg_g11 none talsrcimg_to_711-2C_as_mni_average_305_t4 4355' failed! status=139 ERROR: mpr2mni305 execution aborted* Which is a segmentation fault. Can anyone help me fix this? Thanks, Allie Rosen, MSc Candidate Graduate Student, Department of Neurosurgery Toronto Western Hospital 14-327 399 Bathurst St. University of Toronto 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
Hi Doug,
I read this on a previous email, and I already tried to run recon-all -make all. I included it in my original email, but I'll copy it here:
"I then tried to perform recon-all -make all, but got this error:
*ERROR: mpr2mni305 failed, see transforms/talairach_avi.log*
In the .log, I got this:
*-7.5000 22.5000 15.0000 2793.2134 1Segmentation fault ERROR: 'imgreg_4dfp /usr/rapps/freesurfer/average/711-2C_as_mni_average_305 /usr/rapps/freesurfer/average/711-2B_as_mni_average_305_mask talsrcimg_g11 none talsrcimg_to_711-2C_as_mni_average_305_t4 4355' failed! status=139 ERROR: mpr2mni305 execution aborted*"
Thanks, Allie
On Tue, Apr 12, 2011 at 1:35 PM, Douglas N Greve greve@nmr.mgh.harvard.eduwrote:
It usually means that you have a subject whose surfaces are out-of-synch. This usually happens when you've made edits, launched recon-all, but then then recon-all does not finish for some reason. Check the time stamps on that subject or try running recon-all -make all -s subject
doug
btw, a "Segmentation Fault" is a computer term and does not have anything to do with brain segmentation.
Allie Rosen wrote:
Hi Bruce,
I mean the "mris_preproc" step.
Thanks, Allie
(forgot to reply to all)
On Tue, Apr 12, 2011 at 11:35 AM, Bruce Fischl < fischl@nmr.mgh.harvard.edu mailto:fischl@nmr.mgh.harvard.edu> wrote:
Hi Allie,
what do you mean by "trying to assemble my subjects into a single surface space"?
thanks Bruce
On Tue, 12 Apr 2011, Allie Rosen wrote:
Hi All, Upon trying to assembly my subjects into a single surface space, I got the following error: *ERROR: number of vertices in /media/AMMONIS/fsSubjects/AR_normals/C42/surf/lh.thickness does not match surface (142271,140585) ERROR: reading curvature file * I then tried to perform recon-all -make all, but got this error: *ERROR: mpr2mni305 failed, see transforms/talairach_avi.log* In the .log, I got this: *-7.5000 22.5000 15.0000 2793.2134 1Segmentation fault ERROR: 'imgreg_4dfp /usr/rapps/freesurfer/average/711-2C_as_mni_average_305 /usr/rapps/freesurfer/average/711-2B_as_mni_average_305_mask talsrcimg_g11 none talsrcimg_to_711-2C_as_mni_average_305_t4 4355' failed! status=139 ERROR: mpr2mni305 execution aborted* Which is a segmentation fault. Can anyone help me fix this? Thanks, Allie Rosen, MSc Candidate Graduate Student, Department of Neurosurgery Toronto Western Hospital 14-327 399 Bathurst St. University of TorontoThe 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
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
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