Created
September 5, 2018 15:39
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jobconf
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<?xml version="1.0" ?><job_conf> | |
<plugins workers="4"> | |
<plugin id="slurm" load="galaxy.jobs.runners.slurm:SlurmJobRunner" type="runner"/> | |
<plugin id="pulsar_rest" load="galaxy.jobs.runners.pulsar:PulsarRESTJobRunner" type="runner"/> | |
<plugin id="local" load="galaxy.jobs.runners.local:LocalJobRunner" type="runner" workers="50"/> | |
</plugins> | |
<handlers default="handlers"><handler id="handler0" tags="handlers"><plugin id="slurm"/></handler><handler id="handler1" tags="handlers"><plugin id="slurm"/></handler><handler id="handler2" tags="handlers"><plugin id="slurm"/></handler></handlers> | |
<destinations default="slurm_cluster"> | |
<destination id="slurm_cluster" runner="slurm"/> | |
<destination id="slurm_cluster_cpu4" runner="slurm"> | |
<param id="nativeSpecification">--nodes=1 --ntasks=4</param> | |
</destination> | |
<destination id="slurm_cluster_cpu15" runner="slurm"> | |
<param id="nativeSpecification">--nodes=1 --ntasks=15</param> | |
</destination> | |
<destination id="slurm_cluster_cpu30" runner="slurm"> | |
<param id="nativeSpecification">--nodes=1 --ntasks=30</param> | |
</destination> | |
<destination id="pulsar_server" runner="pulsar_rest"> | |
<param id="url">http://pulsar_server_ip:pulsar_server_port/</param> | |
</destination> | |
<destination id="local_runner" runner="local"/> | |
</destinations> | |
<tools> | |
<!-- <tool id="upload1" destination="local_runner" /> --> | |
<!-- <tool id="random_lines1" destination="pulsar_server" /> --> | |
<tool destination="slurm_cluster_cpu4" id="bowtie"/> | |
<tool destination="slurm_cluster_cpu15" id="bowtie2"/> | |
<tool destination="slurm_cluster_cpu4" id="sailfish"/> | |
<tool destination="slurm_cluster_cpu4" id="cuffmerge"/> | |
<tool destination="slurm_cluster_cpu4" id="cufflinks"/> | |
<tool destination="slurm_cluster_cpu4" id="currnorm"/> | |
<tool destination="slurm_cluster_cpu15" id="bwa"/> | |
<tool destination="slurm_cluster_cpu4" id="tophat_fusion"/> | |
<tool destination="slurm_cluster_cpu4" id="cuffquant"/> | |
<tool destination="slurm_cluster_cpu4" id="cuffdiff"/> | |
<tool destination="slurm_cluster_cpu15" id="bowtie2"/> | |
<tool destination="slurm_cluster_cpu4" id="trimmomatic"/> | |
<tool destination="slurm_cluster_cpu4" id="hisat2"/> | |
<tool destination="slurm_cluster_cpu4" id="pear"/> | |
<tool destination="slurm_cluster_cpu4" id="diamond"/> | |
<tool destination="slurm_cluster_cpu4" id="spades"/> | |
<tool destination="slurm_cluster_cpu15" id="kraken"/> | |
<tool destination="slurm_cluster_cpu15" id="hydra"/> | |
<tool destination="slurm_cluster_cpu30" id="freebayes"/> | |
<tool destination="slurm_cluster_cpu30" id="snippy"/> | |
</tools> | |
</job_conf> |
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