Skip to content

Update GitHub Actions (major) #3971

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
renovate wants to merge 2 commits into
base: dev
Choose a base branch
from
Open

Update GitHub Actions (major) #3971

Show file tree
Hide file tree
Changes from 1 commit
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
0942bc2
Update GitHub Actions
renovate[bot] Dec 13, 2025
d4efdb7
[automated] Update CHANGELOG.md
nf-core-bot Dec 13, 2025
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
Next Next commit
Update GitHub Actions
  • Loading branch information
@renovate
renovate[bot] authored Dec 13, 2025
commit 0942bc254ca48f1a324df8b0a2db92a4e5f91897
2 changes: 1 addition & 1 deletion .github/actions/create-lint-wf/action.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -88,7 +88,7 @@ runs:

- name: Upload log file artifact
if: ${{ always() }}
uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5
uses: actions/upload-artifact@b7c566a772e6b6bfb58ed0dc250532a479d7789f # v6
with:
name: nf-core-log-file-${{ matrix.NXF_VER }}
path: create-lint-wf/log.txt
Expand Down
2 changes: 1 addition & 1 deletion .github/workflows/create-test-lint-wf-template.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -200,7 +200,7 @@ jobs:

- name: Upload log file artifact
if: ${{ always() }}
uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5
uses: actions/upload-artifact@b7c566a772e6b6bfb58ed0dc250532a479d7789f # v6
with:
name: nf-core-log-file-${{ matrix.TEMPLATE }}
path: create-test-lint-wf/artifact_files.tar
Expand Down
2 changes: 1 addition & 1 deletion .github/workflows/create-test-wf.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -93,7 +93,7 @@ jobs:

- name: Upload log file artifact
if: ${{ always() }}
uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5
uses: actions/upload-artifact@b7c566a772e6b6bfb58ed0dc250532a479d7789f # v6
with:
name: nf-core-log-file-${{ matrix.NXF_VER }}
path: create-test-wf/log.txt
Expand Down
6 changes: 3 additions & 3 deletions .github/workflows/pytest.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -120,15 +120,15 @@ jobs:
echo "test=${test}" >> $GITHUB_ENV

- name: Store snapshot report
uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5
uses: actions/upload-artifact@b7c566a772e6b6bfb58ed0dc250532a479d7789f # v6
if: always() && contains(matrix.test, 'test_create_app') && steps.pytest.outcome == 'failure'
with:
include-hidden-files: true
name: Snapshot Report ${{ env.test }}
path: ./snapshot_report.html

- name: Upload coverage
uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5
uses: actions/upload-artifact@b7c566a772e6b6bfb58ed0dc250532a479d7789f # v6
with:
include-hidden-files: true
name: coverage_py${{ matrix.python-version }}_${{ env.test }}
Expand All @@ -154,7 +154,7 @@ jobs:
mv .github/.coveragerc .

- name: Download all artifacts
uses: actions/download-artifact@018cc2cf5baa6db3ef3c5f8a56943fffe632ef53 # v6
uses: actions/download-artifact@37930b1c2abaa49bbe596cd826c3c89aef350131 # v7
with:
pattern: coverage_*

Expand Down
2 changes: 1 addition & 1 deletion .github/workflows/sync.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -125,7 +125,7 @@ jobs:

- name: Upload sync log file artifact
if: ${{ always() }}
uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5
uses: actions/upload-artifact@b7c566a772e6b6bfb58ed0dc250532a479d7789f # v6
with:
name: sync_log_${{ matrix.pipeline }}
path: sync_log_${{ matrix.pipeline }}.txt
2 changes: 1 addition & 1 deletion nf_core/pipeline-template/.github/workflows/awsfulltest.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -40,7 +40,7 @@ jobs:
}
profiles: test_full

- uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5
- uses: actions/upload-artifact@b7c566a772e6b6bfb58ed0dc250532a479d7789f # v6
with:
name: Seqera Platform debug log file
path: |
Expand Down
2 changes: 1 addition & 1 deletion nf_core/pipeline-template/.github/workflows/awstest.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -25,7 +25,7 @@ jobs:
}
profiles: test

- uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5
- uses: actions/upload-artifact@b7c566a772e6b6bfb58ed0dc250532a479d7789f # v6
with:
name: Seqera Platform debug log file
path: |
Expand Down
2 changes: 1 addition & 1 deletion nf_core/pipeline-template/.github/workflows/download_pipeline.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -127,7 +127,7 @@ jobs:
fi{% endraw %}

- name: Upload Nextflow logfile for debugging purposes
uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5
uses: actions/upload-artifact@b7c566a772e6b6bfb58ed0dc250532a479d7789f # v6
with:
name: nextflow_logfile.txt
path: .nextflow.log*
Expand Down
2 changes: 1 addition & 1 deletion nf_core/pipeline-template/.github/workflows/linting.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -64,7 +64,7 @@ jobs:

- name: Upload linting log file artifact
if: ${{ always() }}
uses: actions/upload-artifact@330a01c490aca151604b8cf639adc76d48f6c5d4 # v5
uses: actions/upload-artifact@b7c566a772e6b6bfb58ed0dc250532a479d7789f # v6
with:
name: linting-logs
path: |
Expand Down
Loading