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FIX: Refactor prefix definition #1108

Merged
merged 4 commits into from
Jun 14, 2023
Merged

FIX: Refactor prefix definition #1108

merged 4 commits into from
Jun 14, 2023

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maxulysse
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Fix #938

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github-actions bot commented Jun 14, 2023 •
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nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit 6276707

+| ✅ 153 tests passed       |+
#| ❔   9 tests were ignored |#
!| ❗   1 tests had warnings |!

❗ Test warnings:

❔ Tests ignored:

✅ Tests passed:

Run details

  • nf-core/tools version 2.8
  • Run at 2023-06-14 15:07:18

@robsyme
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robsyme commented Jun 14, 2023

One note - there is in important difference between path.baseName and path.name - the .getBaseName() method (defined in Nextflow) will strip out one extension.

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One note - there is in important difference between path.baseName and path.name - the .getBaseName() method (defined in Nextflow) will strip out one extension.

There is the .getSimpleName() too to remove all extensions, right?

robsyme
robsyme reviewed Jun 14, 2023
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@maxulysse @robsyme
Update conf/modules/joint_germline.config
febf7d8 
Co-authored-by: Robert Syme <rob.syme@gmail.com>
robsyme
robsyme approved these changes Jun 14, 2023
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If the tests pass, these look good.

asp8200 added a commit that referenced this pull request Jun 14, 2023
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Related to PR FIX: Refactor prefix definition #1108
67499b6
@maxulysse maxulysse merged commit abc7fe6 into nf-core:dev Jun 14, 2023
27 checks passed
@maxulysse maxulysse deleted the remove_minus branch June 14, 2023 15:31
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@robsyme robsyme robsyme approved these changes

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@maxulysse @robsyme