External Email - Use Caution
Hello everyone,
I’m currently working on a longitudinal FreeSurfer pipeline in order to compare
cortical thickness changes across the time. I’m using FreeSurfer version 6.0.0
(OS: Scientific Linux 7.3). I already processed the recon-all, -base and -long
processing steps.
Now I’m trying to run the “long_mris_slopes“ processing in order to prepare the
data for a two stage model analyze. But there is an error.
The command:
long_mris_slopes --qdec ./qdec.dat --meas thickness --hemi lh --do-spc
--do-label --time month --qcache fsaverage --sd $SUBJECTDIR
At first everything seems to work well for the 1st subject and then:
==================================================================
SUBJECT CBTPD-001/template_CBTPD-001 mapping label to QCache
(…)
Writing label file
/data/guillaume/ParkAnx3/freesurfer/results/CBTPD-001/template_CBTPD-001/label/lh.long.cortex.fsaverage.label
167889
mri_label2label: Done
Traceback (most recent call last):
File "/opt/mumc/apps/freesurfer-6.0.0/bin/long_mris_slopes", line 868, in
<module>
dirname = tempfile.mkdtemp('',prefix,'')
File "/usr/lib64/python2.7/tempfile.py", line 329, in mkdtemp
_os.mkdir(file, 0700)
OSError: [Errno 2] No such file or directory:
'./tmp-CBTPD-001/template_CBTPD-001_lh_thickness_wuK7ZI'
It seems like the output “lh.long.cortex.fsaverage.label” has been created for
this subject. But then there is a missing “tmp” folder.
I haven’t find this error in the archives. Does anyone have an idea of how to
fix it ?
Best,
Guillaume _______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
