Hi Mason,
My guess is that freesurfer is still grabbing the initial license. Have you
been sure to remove the original one? It might be hiding as a .license file
Best
Andrew
From: <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Mason Wells
<wells...@cardiff.ac.uk>
Reply-To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Date: Wednesday, June 17, 2020 at 5:34 AM
To: "freesurfer-boun...@nmr.mgh.harvard.edu"
<freesurfer-boun...@nmr.mgh.harvard.edu>, FS Help
<freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Freesurfer license file error
External Email - Use Caution
Hi Expets,
I am trying to work with the Ciftify package, a great tool for converting
non-HCP data into cifti format. I am running the following docker command.
However, I get an error with the return code 255
sudo docker run --entrypoint ciftify_recon_all -ti --rm -v
/home/masontwells/Documents/Data/freesurfer/subjects:/data:ro -v
/home/masontwells/Documents/Ciftify/HCP/outputs:/out
tigrlab/fmriprep_ciftify:1.1.8-2.1.1 --surf-reg FS --fs-subjects-dir /data
--ciftify-work-dir /out PPT_1x
cmd: mri_convert /data/PPT_1x/mri/T1.mgz /out/PPT_1x/T1w/T1w.nii.gz
Failed with returncode 255
At the bottom of the ciftify recon-all log it says the below. However, I
downloaded the license as advised, placed it in the correct directory
(usr/local/freesurfer). I have also added the path to the license to my bashrc.
Have you seen this type of error before?
GNU libc version: 2.23
ERROR: Systems running GNU glibc version greater than 2.15
require a newly formatted license file (it's free). Please
download a new one from the following page:
http://surfer.nmr.mgh.harvard.edu/registration.html
--------------------------------------------------------------------------
Cheers,
Mason
Mason T Wells, MSc
PhD student
School of Optometry and Vision Sciences
& Cardiff University Brain Research
Imaging Centre (CUBRIC), School of Psychology
Cardiff University
Cardiff
CF24 4HQ
UK
Email: wells...@cardiff.ac.uk<mailto:wells...@cardiff.ac.uk>
Tel: 02920 879628
Web: Cardiff University
webpage<https://www.cardiff.ac.uk/people/research-students/view/974214->
Mason T Wells, MSc
Myfyriwr PhD
Yr Ysgol Optometreg a Gwyddorau’r Golwg
& Canolfan Ymchwil Delweddu’r Ymennydd Prifysgol Caerdydd (CUBRIC), Yr Ysgol
Seicoleg
Prifysgol Caerdydd
Heol Maindy
Caerdydd
CF24 4HQ
DU
E-bost: wells...@caerdydd.ac.uk<mailto:wells...@caerdydd.ac.uk>
Ffôn: 02920 879628
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