Closed TCLamnidis closed 4 months ago
nf-core lint
overall result: Passed :white_check_mark: :warning:Posted for pipeline commit 2ad49ec
+| ✅ 337 tests passed |+
#| ❔ 1 tests were ignored |#
!| ❗ 22 tests had warnings |!
Made some changes to skip using the input BAMs if they get converted, and tweaked spaces where output from the now-optional modules was used.
Have another look just for completion.
Note: NFCORE_EAGER:EAGER:SAMTOOLS_CONVERT_BAM_INPUT(null)
Waiting for James to test specifically that the right reads from the BAM make it to the FastQs. Not updated the branch to make testing easier.
James, once you are done and happy, feel free to update and merge
Closes #987
PR checklist
scrape_software_versions.py
nf-core lint .
).nextflow run . -profile test,docker
).docs/usage.md
is updated.docs/output.md
is updated.CHANGELOG.md
is updated.README.md
is updated (including new tool citations and authors/contributors).