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added 1240k profile

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Thiseas C. Lamnidis 2021-10-12 15:12:49 +02:00 committed by GitHub
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commit 92648c1c1f
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conf/pipeline/eager/eva.config
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@ -472,4 +472,34 @@ profiles {
bwaalnl = 16500
}
}
1240k {
params {
// Specific nf-core/configs params
config_profile_contact = 'James Fellows Yates (@jfy133)'
config_profile_description = 'nf-core/eager big-data EVA profile provided by nf-core/configs'
}
executor {
queueSize = 6
}
process {
beforeScript = 'export _JAVA_OPTIONS="-XX:ParallelGCThreads=1"'
maxRetries = 2
// Solution for clusterOptions comes from here: https://github.com/nextflow-io/nextflow/issues/332 + personal toMega conversion
clusterOptions = { "-S /bin/bash -V -j y -o output.log -l h_vmem=${task.memory.toGiga()}G,virtual_free=${task.memory.toGiga()}G" }
// Increasing walltime for bwa to avoid unnecessary retries
withName:bwa {
time = { task.attempt == 3 ? 1440.h : task.attempt == 2 ? 72.h : 48.h }
}
withName:markduplicates {
memory = { task.attempt == 3 ? 16.GB : task.attempt == 2 ? 8.GB : 4.GB }
}
}
}
}