Hi, the four processes I saw where all called "lastz" and ran in parallel and consumed 100% of a core each. My guess is that the lastz_wrapper.py is responsible for this. Looking at it I see a some code regarding queuing and in the very beginning this line: WORKERS = 4 and further one the class BaseQueue which starts "threads". BTW. there seems to be no way to adjust this number other than editing the source file - bad. And this get's me wondering if there are other such surprises hidden in galaxy. regards, Andreas On 26.11.2012 15:55, Bob Harris wrote:
Howdy, Andreas,
The four processes started for a galaxy lastz job must involve post-processing the lastz output through some other shell tool. Lastz by itself doesn't support multiple threads or processes.
Bob H
On Nov 26, 2012, at 3:58 AM, Andreas Kuntzagk wrote:
Hi,
I'm wandering how galaxy supports tools that are multithreaded or multi-process. When working with lastz I noticed that it starts 4 parallel processes. Is that always so? Can this be adjusted? What other tools also are multi-process?
regards, Andreas
-- Andreas Kuntzagk
SystemAdministrator
Berlin Institute for Medical Systems Biology at the Max-Delbrueck-Center for Molecular Medicine Robert-Roessle-Str. 10, 13125 Berlin, Germany
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-- Andreas Kuntzagk SystemAdministrator Berlin Institute for Medical Systems Biology at the Max-Delbrueck-Center for Molecular Medicine Robert-Roessle-Str. 10, 13125 Berlin, Germany http://www.mdc-berlin.de/en/bimsb/BIMSB_groups/Dieterich