Hi Guillaume,
not sure what is going on. It could be missing permissions or it could
be that the disk is full?
You could also try to drop the --do-label and see if that works.
Best, Martin
On Fri, 2020-02-14 at 10:12 +0100, Guillaume Carey wrote:
>
> 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
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