half Of Brooklyn Wright
Sent: Wednesday, January 4, 2023 9:17 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] mri_segstats error:
External Email - Use Caution
Hello Freesurfer Developers,
I am currently trying to perform reconstructions on 1mm^3 T1 data and am
finding this error
External Email - Use Caution
Hello Freesurfer Developers,
I am currently trying to perform reconstructions on 1mm^3 T1 data and am
finding this error towards the end of the processing;
\n mri brainvol _stats cor. 15 \n
Segmentation fault
Darwin UW-C02L2083DNMP 18.7.0 Darwin K
The ICV will not change because that depends on the talairach transform.
mri_segstats just reads in the transform that is there and computes the
ICV (note that this is an *estimated* ICV, it is not derived by counting
voxels). There have been several bugs with mri_segstats that are
difficult to
Hi, Doug and all, I wonder if the new version of mri_segstats on the ftp site
will change both the ICV and the SupraTentorial volume? Nick seems to
mention ICV will be different, the ReleaseNotes says the
SupraTentorial Volume will be changed to smaller. Can you explain more
on the difference of th
yes, this is a fix that will be in the next release. The new results are
more accurate.
doug
On 08/22/2012 11:54 AM, Blazey, Tyler wrote:
> Hi Doug,
>
> Thanks for the quickly reply. The new version of mri_segstats works fine. I
> noticed after running it though that all the volumes are slightly
Hi Doug,
Thanks for the quickly reply. The new version of mri_segstats works fine. I
noticed after running it though that all the volumes are slightly different
than those reported by previous version. I think it might have something to do
with the partial volume correction, as the results are
Sorry, there was a bug in that version. I've put an updated version on
that ftp site
doug
On 08/21/2012 03:49 PM, Blazey, Tyler wrote:
> Hi,
>
> I recently installed the updated mri_segstats
> (ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_segstats.linux).
>
> This seems to
Hi,
I recently installed the updated mri_segstats
(ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_segstats.linux).
This seems to work fine for recalculating the supratentorial volume. However,
it is causing my new recons to fail (see example error below). Any suggestions?
Th
yes, that is fine.
doug
Fernanda Palhano wrote:
> Doug,
>
> I have another question about doing a volumetric group analysis. I
> used the command:
> asegstats2table --subjects V1 V2 V3 V4 V5 V6 V7 V8 V9 V10 V11 V12 V13
> V14 V15 V16 V17 V18 V19 V20 V21 V22 V23 V24 V25 V26 V27 V28 V29 V30
> V31
And do you have write permissions? Can you
touch stats/aseg.stats
doug
Fernanda Palhano wrote:
> Yes.
>
> [Fernanda-Palhanos-Mac-Pro:group_analysis_tutorial/004/stats]
> fernandapalhano% ls
> aseg.statslh.aparc.a2009s.statslh.supramarg.stats
> rh.aparc.a2009s.statswmparc.stat
does the stats directory exist?
doug
Fernanda Palhano wrote:
> Hello,
>
> I'm trying to use mri_segstats to obtain some subcortical volume
> stats. When running the command line both in the tutorial data or in
> my own data, I have the follow error: ERROR: could not open
> stats/aseg.stats for
Hello,
I'm trying to use mri_segstats to obtain some subcortical volume stats. When
running the command line both in the tutorial data or in my own data, I have
the follow error: ERROR: could not open stats/aseg.stats for writing
[Fernanda-Palhanos-Mac-Pro:buckner_data/tutorial_subjs/group_analys
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