That Galaxy version is quite old at this point. There were a couple fixes for the cleanup_job config handling over the last year that may have fixed the problem. I run with this option enabled daily and I have not seen any problems in months. If you can confirm this is still a problem with latest stable Galaxy instance - I would be definitely be eager to address any bugs. -John On Sun, Nov 30, 2014 at 5:43 PM, Pandori n <pandorinpan@gmail.com> wrote:

Hi all. Config: - galaxy-dist stable (changeset: 11247:a9a0ac9c1afa) [Dec/18/2013] - NFS - Cluster (torque)

When i start my WF, on step 2, in 'job_working_directory' created temp (intermediate) dir (for tool step 3). But when step 2 is completed, temp dir (in 'job_working_directory') removed(via galaxy) and step 3 failed. In 'universe_wsgi.ini' 'cleanup_job = never'. Why galaxy.jobs deleted temp dir....?

Any help is appreciated. Thanks.

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