It should be restored now, sorry for the problem
On 5/22/2020 11:49 AM, Wang, Lily wrote:
Hi FreeSurfer team,
I am trying to run qcache but it is exiting with errors because it is
not able to find files in the fsaverage/surf directory. I looked in
$FREESURFER_HOME/subjects/fsaverage and there
Hi FreeSurfer team,
I am trying to run qcache but it is exiting with errors because it is not able
to find files in the fsaverage/surf directory. I looked in
$FREESURFER_HOME/subjects/fsaverage and there is indeed not a surf folder.
Should I use one of the other directories like fsaverage3?
Th
ite.K --target fsaverage --out
lh.white.K.fsaverage.mgh
nsubjects = 1
ERROR: cannot find
/lh.white.K
recon-all -s exited with ERRORS
Re: [Freesurfer] -qcache
error<https://www.mail-archive.com/search?l=freesurfer@nmr.mgh.harvard.edu&q=subject:%22Re%5C%3A+%5C%5BFreesurfer%5C%5D+%5C-qcac
d.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Greve, Douglas
N.,Ph.D.
Sent: Friday, January 4, 2019 4:21 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] -qcache error
Does that file exist? If not, check to see whether that subject finished or
whether there was an error
On
Does that file exist? If not, check to see whether that subject finished
or whether there was an error
On 12/20/18 2:37 PM, 塩浜 直 wrote:
> External Email - Use Caution
>
> Hello FreeSurfer Developers,
>
> I'm attempting to do group analysis for cortical thickness map using Qdec GUI.
> We'
It was deleted but then it was created as a link. Does the link exist?
On 3/7/18 1:33 PM, Krishna Patel wrote:
Hi - I would like to do group analysis on freesurfer data that is
processed with verson 6. However when I try to run
recon-all -s subjid -qcache
I get following error after it runs
Hi - I would like to do group analysis on freesurfer data that is processed
with verson 6. However when I try to run
recon-all -s subjid -qcache
I get following error after it runs for some time and generates some of the
files.
ERROR: cannot find surf/lh.white.K
When I look at the log file - I
you can run
pctsurfcon --s subject
On 07/17/2017 06:32 AM, Lisa Delalande wrote:
> Hello everyone,
>
> I'm using the new version of FreeSurfer processing with longitudinal
> image processing. And at the step -base after a recon-all processing i
> would like to make a qcache processing but it d
Hello everyone,
I'm using the new version of FreeSurfer processing with longitudinal image
processing. And at the step -base after a recon-all processing i would like
to make a qcache processing but it doesn't work... "cannot find
[...]/template_1-01VALAL/surf/lh.w-g.pct.mgh" (See in attachment
lo
Hi Skyler,
(I added the freesurfer list in copy, please post all your questions through
the mailing list, thanks!)
If the number of vertices does no match, it might be that you processed the LGI
before you reprocessed the final version of the surfaces for which you
completed the registration p
Hi Gayane,
what happens if you run the mris_calc command directly? Also check if
all the inputs really exist. It could be that you need to update
mris_calc there was a problem with long file names in an earlier
version. Which FS version are you using?
Best, Martin
On 09/09/2014 09:51 AM, Ga
Dear list,
I'm running longitudinal two stage model as is described in the tutorial
here: http://freesurfer.net/fswiki/LongitudinalTwoStageModel
First, I've proceeded with longitudinal pipeline all my data, second, I've
created longitudinal qdec table, and then, I've started to qcache my data,
wh
ent: 05 November 2012 19:37
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] qcache error
>
> Do run out of disk space? Also, please send terminal output in a text
> file rather than as a snapshot. You can do this with
>
> recon-all ... |& tee mylog.txt
>
&
Do run out of disk space? Also, please send terminal output in a text
file rather than as a snapshot. You can do this with
recon-all ... |& tee mylog.txt
doug
On 11/05/2012 10:21 AM, Berg, S.F. van den wrote:
>
> Dear Freesurfer experts,
>
> I have got a problem with the qcache function. I have
sounds like you haven't finished running recon-all on this subject. You
can try -make all to have it redo what's needed
On Tue, 27 Jul 2010,
Robustelli, Briana (NIH/NIMH) [F] wrote:
> Hello,
> I am new to Freesurfer and have recently encountered an error when
> trying to run a qcache on on
Hello,
I am new to Freesurfer and have recently encountered an error when trying
to run a qcache on one of my subjects. Below is the error. I would appreciate
any advise you can give. Thanks!
Reading source surface reg
/misc/data14/jen/practicesurfacedatabase/CMO/surf/lh.sphere.reg
No
you, try running recon-all -make all for that subject
On Wed, 11 Mar 2009,
Dankner, Nathan (NIH/NIMH) [F] wrote:
Hello All,
While running qcache on a subject, I received this error:
ERROR: number of vertices in [subj path]/surf/rh.thickness does not match
surface (152261,152724)ERROR: readi
Check whether the curv and surface files are out of synch (surf files
should be older than curv)
Dankner, Nathan (NIH/NIMH) [F] wrote:
Hello All,
While running qcache on a subject, I received this error:
ERROR: number of vertices in [subj path]/surf/rh.thickness does not match
surface (15226
Hello All,
While running qcache on a subject, I received this error:
ERROR: number of vertices in [subj path]/surf/rh.thickness does not match
surface (152261,152724)ERROR: reading curvature file
This has only happened with this one particular scan. Is this something that
can be resolved? Th
Rysia,
btw, there is a flag you can run in recon-all to check if the vertex
numbers on all the files are the same:
recon-all -s subjid -vno_match_check
it calls the script vno_match_check, which is a handy qa tool.
Nick
On Thu, 2008-12-11 at 15:18 +, Burmicz, Ryzarda wrote:
> Hello,
>
>
William,
That error indicates that something was re-processed at a later date.
The .thickness file is tied to a surface, but if the surface is re-
generated later, it may create a surface with a different number of
vertices, rendering the .thickness file invalid for that surface.
One way to make
When running qcache (on a recent version of freesurfer) after running recon-all
-s 4964-14_recon -all command, I get the following error:
ERROR: number of vertices in
/usr/local/freesurfer/subjects/4964-14_recon/surf/lh.thickness does not match
surface (138139,137319)ERROR: reading curvature fi
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