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Update eva.config

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Set max heap size for java jobs in `get_software_versions`.
Limited OpenBLAS threading for python jobs that use numpy/pandas.
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Thiseas C. Lamnidis 2022-05-03 16:12:20 +02:00 committed by GitHub
parent d1c1b467c1
commit 57095fe79f
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conf/pipeline/eager/eva.config
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@ -191,10 +191,17 @@ process {
withName:get_software_versions { withName:get_software_versions {
cache = false cache = false
beforeScript = '_JAVA_OPTIONS="-XX:ParallelGCThreads=1 -Xmx256m"; export OPENBLAS_NUM_THREADS=1; export OMP_NUM_THREADS=1'
clusterOptions = { "-S /bin/bash -V -l h_vmem=${(task.memory.toGiga() * 2)}G" } clusterOptions = { "-S /bin/bash -V -l h_vmem=${(task.memory.toGiga() * 2)}G" }
errorStrategy = { task.exitStatus in [1,143,137,104,134,139,140] ? 'retry' : 'finish' } errorStrategy = { task.exitStatus in [1,143,137,104,134,139,140] ? 'retry' : 'finish' }
} }
withName:kraken_merge {
beforeScript = 'export OPENBLAS_NUM_THREADS=1; export OMP_NUM_THREADS=1'
}
withName:multiqc {
beforeScript = 'export OPENBLAS_NUM_THREADS=1; export OMP_NUM_THREADS=1;'
} }
profiles { profiles {