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tweak usage.md #68

Merged
merged 5 commits into from
Oct 13, 2023
Merged

tweak usage.md #68

merged 5 commits into from
Oct 13, 2023

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allaway
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@allaway allaway commented Oct 13, 2023

To (partially?) address #67, minor adjustment to docs. 😄

I believe these are the only two relevant checkboxes for this PR:

  • This comment contains a description of changes (with reason).
  • Usage Documentation in docs/usage.md is updated.

@allaway
tweak usage.md
6ef61ef 
To (partially?) address nf-core#63.
@FriederikeHanssen
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Hey! Thanks for fixing the docs. In fact, looks like the file_type is also mandatory :

bamtofastq/assets/schema_input.json

Line 37 in c70f49b

"required": ["sample_id", "mapped", "file_type"]
. Could you add that?

@allaway
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allaway commented Oct 13, 2023

Hey! Thanks for fixing the docs. In fact, looks like the file_type is also mandatory :

bamtofastq/assets/schema_input.json

Line 37 in c70f49b

"required": ["sample_id", "mapped", "file_type"]

. Could you add that?

Ah, ok, that makes sense as to why the docs originally said three columns are required. I'll fix this!

@allaway
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allaway commented Oct 13, 2023

@FriederikeHanssen - let me know if you would like to see any other changes! I also made some changes to make the column names more consistent in the docs.

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github-actions bot commented Oct 13, 2023 •
edited
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nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit 9bf7b9a

+| ✅ 157 tests passed       |+
#| ❔   1 tests were ignored |#
!| ❗   3 tests had warnings |!

❗ Test warnings:

  • nextflow_config - Config manifest.version should end in dev: 2.1.0
  • pipeline_todos - TODO string in main.nf: Remove this line if you don't need a FASTA file
  • pipeline_todos - TODO string in WorkflowBamtofastq.groovy: Optionally add in-text citation tools to this list.

❔ Tests ignored:

  • files_unchanged - File ignored due to lint config: .github/CONTRIBUTING.md

✅ Tests passed:

Run details

  • nf-core/tools version 2.10
  • Run at 2023-10-13 21:27:29

@FriederikeHanssen
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@nf-core-bot fix linting

FriederikeHanssen
FriederikeHanssen approved these changes Oct 13, 2023
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Wonderful, thanks a lot 😊 just waiting for the bot to fix linting and then can merge

@FriederikeHanssen FriederikeHanssen merged commit b4c15ee into nf-core:dev Oct 13, 2023
@asp8200 asp8200 mentioned this pull request Feb 20, 2024
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@FriederikeHanssen FriederikeHanssen FriederikeHanssen approved these changes

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