problem mounting /30days when downloading Freesurfer image from CLI

[thomshaw92]

HPC no longer supports /30days and so the bindpaths seem to make the container build fail when fetching freesurfer
(run on awoonga)

checking if container needs to be downloaded       

                                                                 
    pulling image now ...           

                                                                                       
   % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current    Dload  Upload   Total   Spent    Left  Speed  


100 2395M  100 2395M    0     0  11.9M      0  0:03:20  0:03:20 --:--:-- 12.5M           

 checking which executables exist inside container

  executing: 

singularity exec --pwd /home/uqtshaw/neurodesk/local/containers/freesurfer_7.1.1_20210225 freesurfer_7.1.1_20210225.simg 

/home/uqtshaw/neurodesk/local/containers/freesurfer_7.1.1_20210225/ts_binaryFinder.sh                       FATAL:   container 

creation failed: mount /30days->/30days error: while mounting /30days: mount source /30days doesn't exist       

   checking if commands.txt exists now       

 [DEBUG] run_transparent_singularity: Trying to set singularity bindpaths: 

 FATAL:   container creation failed: mount /30days->/30days error: while mounting /30days: mount source /30days doesn't exist 

 [DEBUG] run_transparent_singularity: Something is wrong with the Singularity Bindpath. Please check!  

[aswinnarayanan]

@thomshaw92
This looks like an issue with the singularity configuration on the HPC
Does this error occur when opening a generic singularity container on the same HPC?

e.g.

singularity pull library://alpine
singularity shell alpine_latest.sif

And the following should suppress the auto-mounts
singularity shell --contain alpine_latest.sif

[stebo85]

Yes, this is an issue with awoonga - not our containers. I already send a helpdesk ticket. Workaround is to use singularity 2.6.1 as this just shows a warning but still executes the container with wrong global bindpaths.