Category:
Resolution:
Resolved
Workaround Link:
Affected Software:
You might encounter an error while pulling a large Docker image:
[pitzer-login01]$ apptainer pull docker://qimme2/core FATAL: Unable to pull docker://qiime2/core While running mksquashfs: signal: killed
The process could be killed because the image is cached in the home directory which is a slower file system or the image size might exceed a single file size limit.
The solution is to use other file systems like /fs/ess/scratch and $TMPDIR for caches and temp files to build the squashfs filesystem:
[pitzer-login01]$ salloc -n 1 -A PAS1234 bash-4.2$ export APPTAINER_CACHEDIR=$TMPDIR bash-4.2$ export APPTAINER_TMPDIR=$TMPDIR bash-4.2$ singularity pull docker://qiime2/core:2019.1 INFO: Converting OCI blobs to SIF format INFO: Starting build... ... INFO: Creating SIF file... bash-4.2$ exit
