Question: (Closed) Multiple cores on galaxy?
0
Andrew Norman • 20 wrote:
Hi
I'm a complete Galaxy newbie, and am trying to configure a 16-core workstation to run, with an emphasis on speed-per-job. In other words, I'd like to dedicate as many cores to a given job as possible, and will run jobs sequentially.
This example job_conf.xml file was very well laid out and explained (from https://biostar.usegalaxy.org/p/10158/#23245), and I've attempted to modify it to run 14 cores on the listed tools. However, it's not working, and it looks like only one core is working when I run Cufflinks (for example). Any idea what I'm doing wrong? Are there any other configuration files that I need to tweak? I have a feeling I'm doing some that is obviously wrong, and I apologize if I am.
<job_conf> <plugins> <plugin id="local" type="runner" load="galaxy.jobs.runners.local:LocalJobRunner" workers="2"/> <plugin id="multilocal" type="runner" load="galaxy.jobs.runners.local:LocalJobRunner" workers="1"/> </plugins>
<handlers> <handler id="main"/> </handlers>
<destinations default="local"> <destination id="local" runner="local"/> <destination id="multicore14" runner="multilocal"> <param id="local_slots">14</param> </destination> </destinations>
<tools> <tool id="cuffdiff" destination="multicore14"/> <tool id="cufflinks" destination="multicore14"/> <tool id="cuffmerge" destination="multicore14"/> <tool id="fastq_groomer" destination="multicore14"/> <tool id="fastqc" destination="multicore14"/> <tool id="rgrnastar" destination="multicore14"/> <tool id="trimmomatic" destination="multicore14"/> </tools>
</job_conf>
Moved from https://biostar.usegalaxy.org/p/10158/#23240
Related to https://biostar.usegalaxy.org/p/27350/
Hello Andrew Norman!
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