Hi Mihaela
usually that means the subject was partially but not completely rerun.
You can try using recon-all -s <subject> -make all
and see if it fixes it
cheers
Bruce
On Thu, 23 Jan 2014,
Mihaela Stefan wrote:
Hello FreeSurfers,
I am trying to run a group analysis with Qdec following thistutorial:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QdecGroupAnal
ysis_freeview
I got a series of errors when I ran: recon-all -s <subjid> -qcache
....
ERROR: number of vertices in
/home/subiculum/Desktop/local_recons/OCD_analysis/3662/surf/lh.volume does
not match surface (126049,126592)
ERROR: reading curvature file
...
mri_concat ./tmp.mris_preproc.6022/3662.1.mgh --o lh.volume.fsaverage.mgh
mghRead(./tmp.mris_preproc.6022/3662.1.mgh, -1): could not open file
ninputs = 1
Checking inputs
ERROR: reading ./tmp.mris_preproc.6022/3662.1.mgh
...
Reading source surface
reg/home/subiculum/Desktop/local_recons/OCD_analysis/fsaverage/surf/lh.sphere.
reg
Loading source data
ERROR: could not read lh.volume.fsaverage.mgh as type 3
Linux subiculum-Precision-T1650 3.5.0-45-generic #68~precise1-Ubuntu SMP Wed
Dec 4 16:18:46 UTC 2013 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s 3662 exited with ERRORS at Thu Jan 23 15:22:21 EST 2014
One of the errors says "number of vertices in... does not match surface." I
found an older post where someone else was complaining about the same error
and Doug suggested running "recon-all -surfvolume ..."
https://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/2012-September/025737
.html
I did that and then I ran -qcache again but I got the same errors. It also
seems to be a problem with fsaverage. I do have a copy of fsaverage in the
subject's directory of this study.
I am attaching the log file with details about the errors.
Can someone help me sort this out?
Thank you,
Mihaela
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