Shigapass#9658

Merged

eit-maxlcummins merged 34 commits intonf-core:masterfrom

eit-maxlcummins:shigapass-new

Jan 23, 2026

Commits on Jan 15, 2026

add shigapass module

maxlcummins
authored and
eit-maxlcummins
committed
remove unnecessary bk file

maxlcummins
authored and
eit-maxlcummins
committed
fixed some linter flagged issues

maxlcummins
authored and
eit-maxlcummins
committed
updates for testing

maxlcummins
authored and
eit-maxlcummins
committed
remove name field

maxlcummins
authored and
eit-maxlcummins
committed
remove error detailing tool url

maxlcummins
authored and
eit-maxlcummins
committed
add main.nf.test.snap and update main.nf.test as per pull request #6636

maxlcummins
authored and
eit-maxlcummins
committed
change readlink -f to ls as per PR feedback

maxlcummins
authored and
eit-maxlcummins
committed
add gzip support via rpetit3 and fix lint errors

maxlcummins
authored and
eit-maxlcummins
committed
fix error in args definition

maxlcummins
authored and
eit-maxlcummins
committed
change shigapass main.nf to pass nf-core tests

maxlcummins
authored and
eit-maxlcummins
committed
Update meta.yml

maxlcummins
authored and
eit-maxlcummins
committed
Update main.nf

maxlcummins
authored and
eit-maxlcummins
committed
Add variable output tolerance for shigapass

maxlcummins
authored and
eit-maxlcummins
committed
Update Shigapass main.nf

maxlcummins
authored and
eit-maxlcummins
committed
modify meta.yaml for pre-commit/action@2c7b3805fd2a0fd8c1884dcaebf91fc102a13ecd

maxlcummins
authored and
eit-maxlcummins
committed
Update modules/nf-core/shigapass/meta.yml

authored and
eit-maxlcummins
committed
Update modules/nf-core/shigapass/meta.yml

authored and
eit-maxlcummins
committed
fixed some issues highlighted by SPPearce

maxlcummins
authored and
eit-maxlcummins
committed
update versions to topic channel, fix indentation issues from review, recreate snapshot
eit-maxlcummins
committed
update meta.yml for versions topic channel
eit-maxlcummins
committed
more fixes to meta.yml for versions topic
eit-maxlcummins
committed
more fixes to meta.yml for versions topic
eit-maxlcummins
committed
fix version capturing command
eit-maxlcummins
committed
fix yaml lint errors
eit-maxlcummins
committed
fix meta.yml linting issues
eit-maxlcummins
committed
Merge branch 'master' into shigapass-new
eit-maxlcummins
authored
Merge branch 'master' into shigapass-new
eit-maxlcummins
authored
Fix newline at end of file
eit-maxlcummins
committed
modify database provision to dynamically select db path based on conda or container based execution
eit-maxlcummins
committed
add comments to extra commands for delim change
eit-maxlcummins
committed
Merge branch 'master' into shigapass-new
eit-maxlcummins
authored

Commits on Jan 23, 2026