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nipy / mindboggle

Automated anatomical brain label/shape analysis software (+ website)
http://mindboggle.info
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in singularity cannot execute binary file: Exec format error #211

Closed rsiugzda closed 3 years ago

rsiugzda commented 3 years ago

I am trying to run singularity on cluster:

singularity run -B /imaging/pilots/sub-01/:/home/jovyan/work -B /imaging/soft/freesurfer/6.0.0/x86_64/license.txt:/config/license.txt -e mindboggle.simg /home/jovyan/work/anat/T1w.nii.gz

the error is: /neurodocker/startup.sh: line 5: /home/jovyan/work/anat/T1.nii.gz: cannot execute binary file: Exec format error

I saw the similar problem on docker. Anyhow not sure how to solve it.

rsiugzda commented 3 years ago

solved with:

mindboggle123 /home/jovyan/work/anat/T1w.nii.gz

shnizzedy commented 3 years ago

I'm glad you were able to spot the issue (missing the command). We've seen some issues with Mindboggle on clusters over the past year or so, so please let us know if you have success or more difficulties.

Thanks!

rsiugzda commented 3 years ago

sure 😉

From: Jon Clucas @.***> Sent: 20 May 2021 15:59:43 To: nipy/mindboggle Cc: Roma Siugzdaite; Author Subject: Re: [nipy/mindboggle] in singularity cannot execute binary file: Exec format error (#211)

I'm glad you were able to spot the issue (missing the command). We've seen some issues with Mindboggle on clusters over the past year or so, so please let us know if you have success or more difficulties.

Thanks!

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHubhttps://github.com/nipy/mindboggle/issues/211#issuecomment-845149493, or unsubscribehttps://github.com/notifications/unsubscribe-auth/AB2S423KSJ2JL5HDIAKX4STTOUIU7ANCNFSM45FBLDKQ.