millironx/nf-configs
1
0
Fork 0
mirror of https://github.com/MillironX/nf-configs.git synced 2024-12-23 02:48:17 +00:00
Code Issues Releases Packages Activity

Merge pull request #113 from jfy133/master

Browse source 
Updates SHH specific nf-core/eager pipeline
This commit is contained in:
James A. Fellows Yates 2019-12-21 22:28:38 +01:00 committed by GitHub
commit 28d7e4d4e8
No known key found for this signature in database
GPG key ID: 4AEE18F83AFDEB23
2 changed files with 4 additions and 3 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

5
conf/pipeline/eager/shh.config
View file

@ -10,8 +10,9 @@ params {
// Specific nf-core/eager process configuration
process {
withName: malt {
memory = { 725.GB * task.attempt }
cpus = { 64 * task.attempt }
maxRetries = 1
memory = { task.attempt > 1 ? 1900.GB : 725.GB }
cpus = { task.attempt > 1 ? 112 : 64 }
time = 1440.h
queue = { task.memory > 756.GB ? 'supercruncher' : 'long' }
}

2
docs/pipeline/eager/shh.md
View file

@ -14,4 +14,4 @@ Example: `nextflow run nf-core/eager -profile shh`
Specific configurations for shh has been made for eager.
* Running with the MALT module turned on, will by default be sent either to long or supercruncher queues with a minimum of 756GB and 64 cores.
* If running with the MALT module turned on, the MALT process by default will be sent to the long queue with a resource requirement minimum of 725GB and 64 cores. If this fails, the process will be tried once more only and sent to the supercruncher queue. The module will not retry after this, and pipeline will fail.