Memory handling and DREP

Doubled the memory for DREP. Added more exit codes to the retry policy
EBI-Metagenomics · Jul 8, 2023 · ef9557a · ef9557a
1 parent 2bee149
commit ef9557a
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/config/codon_xlarge.config b/config/codon_xlarge.config
@@ -21,7 +21,7 @@ process {
  cpus = 4; memory = { 2.GB * task.attempt }
  }
  withName: DREP {
- cpus = 32; memory = { 100.GB * task.attempt }
+ cpus = 32; memory = { 200.GB * task.attempt }
  }
  withName: EGGNOG_MAPPER {
  cpus = 16; memory = { 50.GB * task.attempt }

diff --git a/nextflow.config b/nextflow.config
@@ -105,7 +105,7 @@ profiles {
  process {
  cache = "lenient"
  errorStrategy = {
- task.exitStatus in 137..140 && task.attempt <= 2 ? 'retry' : 'finish'
+ task.exitStatus in ((130..145) + 104 + 247 + 250) && task.attempt <= 2 ? 'retry' : 'finish'
  }
  queue = {
  task.memory >= 200.GB ? 'bigmem' : 'production'