Bug #4470
closed[Crunch] tmpdir not writable running jobs in Docker
100%
Description
https://workbench.qr1hi.arvadosapi.com/pipeline_instances/qr1hi-d1hrv-e3jx9on6hkp9c8o#Components
$ arv run --local /bin/bash ./vartovcf.sh -- <collection hash1> <collection hash2>
qr1hi-8i9sb-lzelnxp2m7y01xp 19126 0 stderr Traceback (most recent call last):
qr1hi-8i9sb-lzelnxp2m7y01xp 19126 0 stderr File "/tmp/crunch-job-4009/src/crunch_scripts/run-command", line 43, in <module>
qr1hi-8i9sb-lzelnxp2m7y01xp 19126 0 stderr os.mkdir("tmpdir")
qr1hi-8i9sb-lzelnxp2m7y01xp 19126 0 stderr OSError: [Errno 13] Permission denied: 'tmpdir'
2014-11-07 21:44:41 +0000 -- pipeline_instance qr1hi-d1hrv-e3jx9on6hkp9c8o
command qr1hi-8i9sb-lzelnxp2m7y01xp failed 2014-11-07T21:44:37Z
Pipeline is Failed
No output
I can provide full log on request (contains hashes).
Some indication on Workbench that this was run locally might be nice too.