On Tue, May 28, 2013 at 1:52 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:

how did you create the label? If it has more vertices than the subject has then something is very wrong. You don't always get segfaults, you might just get garbage and never know it.
doug

On 05/28/2013 02:32 PM, Rob Tennyson wrote:

Hi Doug,

It appears that the subject I'm having the PHC issue with has fewer than 163798 vertices - it has 123249 vertices - however, it seems that all of our subjects have fewer vertices and I do not run into an error with any other subjects with this label.

Also, I'm able to load the label onto my data in freeview without any issue. I'm having some problems opening my surfaces with tksurfer on my lab desktop, though. Should I upload the subjects in question so you can take a look?

Thanks!
Rob

On Tue, May 28, 2013 at 10:06 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote:

Nothing looks like it is wrong with that label. Can you verify
that the white surface has not been changed since the label was
created? Check how many vertices the white surface has with
mris_info. The PHC label references a vertex index as high as
163798. If the white surface does not have that many veritices,
then that could cause the problem.
doug

On 05/28/2013 10:33 AM, Rob Tennyson wrote:

Hi Doug,

Attached are the three labels I'm having an issue with (each
with a different subject). These are built from areas that we
found functional differences between a healthy control group
and a MDD group. I was going to take a look at the anatomical
stats to see if there are thickness or volume differences as well.

I am also going to review the white surface soon as Bruce
suggested.

On Tue, May 28, 2013 at 9:26 AM, Douglas N Greve
<greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
<mailto:greve@nmr.mgh.harvard.edu

<mailto:greve@nmr.mgh.harvard.edu>>> wrote:

Rob, can you send me your label?

doug

On 05/27/2013 01:00 PM, Rob Tennyson wrote:
> Hi All,
>
> I'm running "mris_anatomical_stats" with a few manually
defined
> labels. For a few of my subjects, I am getting the error:
> "Segmentation fault" on one of the labels. However, the
other
manually
> defined labels process without any errors on these same
subjects.
>
> For example, I am running "mri_anatomical_stats" on
subject 33_bay6
> with a manually defined ERC label, a manually defined
PHC label,
and a
> manually defined medial frontal gyrus label. The only
label that
runs
> an error for this subject is the PHC label. This PHC
label runs
> without any errors on the rest of my subjects.
>
> Here is what is displayed when running a label that fails:
>
> "> mris_anatomical_stats -f PHC.stats.04.txt -l
lh.PHC_1.label -b
> 33_bay6 lh
> limiting computations to label lh.PHC_1.label.
> reading volume
/Volumes/BigRaid/Rob/subjects/33_bay6/mri/wm.mgz...
> reading input surface
> /Volumes/BigRaid/Rob/subjects/33_bay6/surf/lh.white...
> reading input pial surface
> /Volumes/BigRaid/Rob/subjects/33_bay6/surf/lh.pial...
> reading input white surface
> /Volumes/BigRaid/Rob/subjects/33_bay6/surf/lh.white...
> Segmentation fault"
>
> Does anyone know what may be causing the Segmentation
fault and what
> steps I should take to fix it?
>
> Thank you for your help!
> Rob
>
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
<mailto:Freesurfer@nmr.mgh.harvard.edu>
<mailto:Freesurfer@nmr.mgh.harvard.edu

<mailto: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 <mailto:greve@nmr.mgh.harvard.edu>
<mailto:greve@nmr.mgh.harvard.edu

<mailto:greve@nmr.mgh.harvard.edu>>

Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>
<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>

Outgoing:
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
<mailto:Freesurfer@nmr.mgh.harvard.edu>
<mailto: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.

-- Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>
Outgoing:
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

--
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: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/