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testing #2

Merged
merged 18 commits into from
Sep 18, 2024
Merged

testing #2

merged 18 commits into from
Sep 18, 2024

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DLBPointon
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Adding test data

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github-actions bot commented Aug 21, 2024

nf-core lint overall result: Passed ✅ ⚠️

Posted for pipeline commit a8c8189

+| ✅ 153 tests passed       |+
#| ❔  18 tests were ignored |#
!| ❗  15 tests had warnings |!

❗ Test warnings:

  • nextflow_config - Config manifest.version should end in dev: 1.0
  • readme - README contains the placeholder zenodo.XXXXXXX. This should be replaced with the zenodo doi (after the first release).
  • pipeline_todos - TODO string in nextflow.config: Specify your pipeline's command line flags
  • pipeline_todos - TODO string in README.md: Add citation for pipeline after first release. Uncomment lines below and update Zenodo doi and badge at the top of this file.
  • pipeline_todos - TODO string in README.md: Add bibliography of tools and data used in your pipeline
  • pipeline_todos - TODO string in ci.yml: You can customise CI pipeline run tests as required
  • pipeline_todos - TODO string in base.config: Check the defaults for all processes
  • pipeline_todos - TODO string in base.config: Customise requirements for specific processes.
  • pipeline_todos - TODO string in test_full.config: Specify the paths to your full test data ( on nf-core/test-datasets or directly in repositories, e.g. SRA)
  • pipeline_todos - TODO string in test_full.config: Give any required params for the test so that command line flags are not needed
  • pipeline_todos - TODO string in methods_description_template.yml: #Update the HTML below to your preferred methods description, e.g. add publication citation for this pipeline
  • pipeline_todos - TODO string in main.nf: Optionally add in-text citation tools to this list.
  • pipeline_todos - TODO string in main.nf: Optionally add bibliographic entries to this list.
  • pipeline_todos - TODO string in main.nf: Only uncomment below if logic in toolCitationText/toolBibliographyText has been filled!
  • pipeline_todos - TODO string in usage.md: Add documentation about anything specific to running your pipeline. For general topics, please point to (and add to) the main nf-core website.

❔ Tests ignored:

  • files_exist - File is ignored: CODE_OF_CONDUCT.md
  • files_exist - File is ignored: assets/nf-core-ear_logo_light.png
  • files_exist - File is ignored: docs/images/nf-core-ear_logo_light.png
  • files_exist - File is ignored: docs/images/nf-core-ear_logo_dark.png
  • files_exist - File is ignored: lib/nfcore_external_java_deps.jar
  • files_exist - File is ignored: .github/ISSUE_TEMPLATE/config.yml
  • files_exist - File is ignored: .github/workflows/awstest.yml
  • files_exist - File is ignored: .github/workflows/awsfulltest.yml
  • files_exist - File is ignored: conf/igenomes.config
  • nextflow_config - Config variable ignored: manifest.name
  • nextflow_config - Config variable ignored: manifest.homePage
  • files_unchanged - File ignored due to lint config: CODE_OF_CONDUCT.md
  • files_unchanged - File ignored due to lint config: .github/ISSUE_TEMPLATE/bug_report.yml
  • files_unchanged - File does not exist: .github/ISSUE_TEMPLATE/config.yml
  • files_unchanged - File ignored due to lint config: assets/nf-core-ear_logo_light.png
  • files_unchanged - File ignored due to lint config: docs/images/nf-core-ear_logo_light.png
  • files_unchanged - File ignored due to lint config: docs/images/nf-core-ear_logo_dark.png
  • actions_awstest - 'awstest.yml' workflow not found: /home/runner/work/ear/ear/.github/workflows/awstest.yml

✅ Tests passed:

Run details

  • nf-core/tools version 2.14.1
  • Run at 2024-09-18 15:37:39

@DLBPointon DLBPointon merged commit 37324f8 into main Sep 18, 2024
4 checks passed
@DLBPointon DLBPointon deleted the dp24_testdata branch September 18, 2024 19:11
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