I simply removed the ulimit and the jobs complete successfully, but I still wonder why it does not work and would like to put the ulimit again in place. It happens also with very simple jobs, like filter tool on a 7k region file for “chr1”. thank you very much, ido On 10 Nov 2014, at 11:34, Ido Tamir <tamir@imp.ac.at> wrote:
Hi, I updated to the latest galaxy distribution (after one year). And now every job fails with: /home/imba/solexa/.profile.sh: line 118: ulimit: virtual memory: cannot modify limit: Operation not permitted
The limit is ridiculously high: ulimit -v 60000000
Its just to prevent some badly programmed in house galaxy tools to crash the server. I think the problem happens after the set_metadata stage.
Any advice?
thank you very much, ido ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
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