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64 lines
1.5 KiB
Text
64 lines
1.5 KiB
Text
/*
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* -------------------------------------------------
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* Nextflow custom config file for running nf-core eager on data generated at the Francis Crick Institute
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* contact: Alexandre Gilardet alexandre.gilardet@crick.ac.uk
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* -------------------------------------------------
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* nextflow run nf-core/eager -profile <profile>,crick -c crick.config
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* (where <profile> is screening, production or external)
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*/
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params {
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config_profile_name = 'nf-core/eager Crick screening, production & external profiles'
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config_profile_description = "Profiles for ressources fitting low & high coverage data generated at the Crick (screening & production respectively). Option for higher coverage external data."
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}
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profiles {
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screening {
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process {
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withName:bwa {
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cpus = 12
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memory = '15 GB'
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time = '6h'
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}
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}
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}
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production {
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process {
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withName:adapter_removal {
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time = '3d'
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}
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withName:fastp {
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time = '8h'
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}
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withName:bwa {
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cpus = 8
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memory = '56 GB'
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time = '3d'
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}
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withName:samtools_filter {
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time = '3d'
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}
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withName:dedup {
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cpus = 6
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memory = '20 GB'
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time = '3d'
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}
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withName:damageprofiler {
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memory = '64 GB'
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time = '3d'
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errorStrategy = { task.exitStatus in [1,143,137,104,134,139] ? 'retry' : 'finish' }
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}
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}
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}
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external {
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process {
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withName:samtools_filter {
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cpus = 12
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memory = '72 GB'
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}
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}
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}
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}
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