Question: (Closed) Multiple cores on galaxy?
gravatar for Andrew Norman
18 months ago by
Andrew Norman20 wrote:


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, 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="" workers="2"/> <plugin id="multilocal" type="runner" load="" 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>

ADD COMMENTlink written 18 months ago by Andrew Norman20

Hello Andrew Norman!

Questions similar to yours can already be found at:

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ADD REPLYlink written 8 months ago by Jennifer Hillman Jackson25k
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