Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

fix annoying PRESEQ failure for methylseq #5091

Merged
merged 2 commits into from
Mar 11, 2024
+2 −1
Merged

fix annoying PRESEQ failure for methylseq #5091

Changes from 1 commit
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
f39ef5b
fix annoying PRESEQ failure for methylseq
maxulysse Mar 11, 2024
20583ca
Update modules/nf-core/preseq/lcextrap/main.nf
maxulysse Mar 11, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
3 changes: 2 additions & 1 deletion modules/nf-core/preseq/lcextrap/main.nf
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
process PRESEQ_LCEXTRAP {
tag "$meta.id"
label 'process_single'
label 'error_ignore'
label 'error_retry'

conda "${moduleDir}/environment.yml"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
Expand All @@ -21,6 +21,7 @@ process PRESEQ_LCEXTRAP {

script:
def args = task.ext.args ?: ''
args = task.attempt > 1 ? args.join(' -defects') : args
maxulysse marked this conversation as resolved.
Show resolved Hide resolved
def prefix = task.ext.prefix ?: "${meta.id}"
def paired_end = meta.single_end ? '' : '-pe'
"""
Expand Down
Loading