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

Make jobs automatically resubmit for a much wider range of exit codes #2170

Merged
merged 5 commits into from
Feb 5, 2023
Merged

Make jobs automatically resubmit for a much wider range of exit codes #2170

Show file tree
Hide file tree
Changes from 1 commit
Commits
Show all changes
5 commits
Select commit Hold shift + click to select a range
da6f860
Make jobs automatically resubmit for a much wider range of exit codes
ewels Jan 24, 2023
eeba92b
Add 104 to retry error codes
ewels Jan 30, 2023
c0a6ff5
Update CHANGELOG.md
ewels Feb 1, 2023
695231f
Merge branch 'dev' into errorStrategy_exitCodes
muffato Feb 2, 2023
6ff70af
Run new version of Black
ewels Feb 4, 2023
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
1 change: 1 addition & 0 deletions CHANGELOG.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -5,6 +5,7 @@
### Template

- Turn on automatic clean up of intermediate files in `work/` on successful pipeline completion in full-test config ([#2163](https://github.com/nf-core/tools/pull/2163))
- Make jobs automatically resubmit for a much wider range of exit codes (now `130..145`)
ewels marked this conversation as resolved.
Show resolved Hide resolved

### Linting

Expand Down
2 changes: 1 addition & 1 deletion nf_core/pipeline-template/conf/base.config
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -15,7 +15,7 @@ process {
memory = { check_max( 6.GB * task.attempt, 'memory' ) }
time = { check_max( 4.h * task.attempt, 'time' ) }

errorStrategy = { task.exitStatus in [143,137,104,134,139] ? 'retry' : 'finish' }
errorStrategy = { task.exitStatus in 130..145 ? 'retry' : 'finish' }
ewels marked this conversation as resolved.
Show resolved Hide resolved
maxRetries = 1
maxErrors = '-1'

Expand Down