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Hi, I used to use the pipeline but in December it ...
# hic
y
Hi, I used to use the pipeline but in December it was not working, I updated nextflow etc... but I have still this error with singularity :
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ERROR ~ Error executing process > 'NFCORE_HIC:HIC:INPUT_CHECK:SAMPLESHEET_CHECK'

Caused by:
  Failed to pull singularity image
    command: singularity pull  --name depot.galaxyproject.org-singularity-python-3.8.3.img.pulling.1736157705805 <https://depot.galaxyproject.org/singularity/python:3.8.3> > /dev/null
    status : 255
    hint   : Try and increase singularity.pullTimeout in the config (current is "20m")
    message:
      ERROR: pull is only supported for shub URIs
I have put my log. Thanks,
.nextflow.log
s
What version of singularity are you using?
Can you execute the command: 
singularity pull  --name depot.galaxyproject.org-singularity-python-3.8.3.img.pulling.1736157705805 <https://depot.galaxyproject.org/singularity/python:3.8.3>
It should show a progress bar and then create a file (
depot.galaxyproject.org-singularity-python-3.8.3.img.pulling.1736157705805
) in your current directory
y
ERROR: pull is only supported for shub URIs
it returns that
s
What version of singularity are you using?
y
2.4.2-dist
need update maybe...
s
Yeah, that is 7 years old
Singularity split into a commercial product (Singularity) and an open source one (Apptainer) about 3 years ago
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