On Jan 30, 2013, at 2:51 PM, Anthonius deBoer wrote:
> I continue to see this error in the logs, every time a jobs finishes:
> galaxy.objectstore CRITICAL 2013-01-30 11:42:14,161
> /mnt/ngs/analysis/svcgalaxy/DATA/job_working_directory/000/327 delete
> error [Errno 39] Directory not empty:
> When I check the directory, it is of course empty:
> $ls -la /mnt/ngs/analysis/svcgalaxy/DATA/job_working_directory/000/327
> total 68
> drwxrwsr-x 2 svcgalaxy Domain Linux Users 0 Jan 30 11:42 .
> drwxrwsr-x 283 svcgalaxy Domain Linux Users 5793 Jan 30 11:45 ..
> Any ideas why this keeps happening?
> I end up with thousands of directories in the working directories which I
> need to clean out manually now...
You'll probably need to add a debug statement to the code that outputs the
contents of that directory at the time of attempted deletion. The call to
delete() is in the cleanup() method in lib/galaxy/jobs/__init__.py.
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