There is also a memory leak that occurs when using the pbs job runner.  I 
believe the leak is somewhere in libtorque or pbs_python but I have not yet 
tracked it down.

--nate

On Feb 29, 2012, at 3:28 PM, John Chilton wrote:

> We had intermittent issues like this for an embarrassingly long time
> at MSI, but since we applied this patch
> https://bitbucket.org/galaxy/galaxy-central/pull-request/36/fix-for-dynamic_optionspy
> Galaxy has been running smoothly for weeks. Seems unlikely this is the
> problem in your case (unless you have pulled in tools with make use of
> dynamic options), but it something to consider.
> 
> -John
> 
> On Wed, Feb 29, 2012 at 2:08 PM, Joshua Gross <gros...@students.wwu.edu> 
> wrote:
>> Hi all--
>> 
>> Our group is running a local instance of Galaxy on a Linux box.  We have
>> been noticing a memory issue, where if we leave the server running for a few
>> days, soon all available memory (~8gb) will be used up to the point where
>> the tools fail because they are unable to allocate new memory.
>> 
>> While we haven't done any rigorous testing, this issue seems to be
>> independent of the specific tools we run, and actually seems to still appear
>> if we do not run any tools at all.  The process "python" is what is taking
>> up all the memory, and the issue is not instantaneous but happens over
>> time.  Restarting the server frees the memory immediately.
>> 
>> Is this a known issue?  If so, is there a known fix for it?  Any insight on
>> this would be much appreciated, as it is complicating our efforts to
>> automate long work-flows.
>> 
>> Thank you so much for your time
>> 
>> Josh Gross, Western Washington University.
>> 
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