1
0
Fork 0
mirror of https://github.com/MillironX/nf-configs.git synced 2024-11-10 20:13:09 +00:00

added 1240k profile

This commit is contained in:
Thiseas C. Lamnidis 2021-10-12 15:12:49 +02:00 committed by GitHub
parent 8d68d76a44
commit 92648c1c1f
No known key found for this signature in database
GPG key ID: 4AEE18F83AFDEB23

View file

@ -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 }
}
}
}
}