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Merged
mirpedrol merged 47 commits into from
Jan 27, 2025
Merged

dev -> main for 3.2.0 release #3428

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fd0016c
bump version to 3.2.0dev
mirpedrol Jan 20, 2025
0716d91
Merge pull request #3409 from mirpedrol/bump-to-3.2.0
mirpedrol Jan 20, 2025
c1692f5
fix(1929): more type-gating
awgymer Oct 28, 2024
90978ea
fix CHANGELOG.md
nf-core-bot Oct 28, 2024
a5bb0f0
fix(1929): update subworkflow tests and add lint test markdown
awgymer Oct 28, 2024
732c786
Apply suggestions from code review
awgymer Oct 29, 2024
7ba6f79
feat(1929): allow missing files when linting local modules
awgymer Oct 29, 2024
8a1d44a
feat(1929): local linting option now *only* lints local modules. Add …
awgymer Oct 29, 2024
6c9c1b1
feat(1929): don't ask for a module/subworkflow name to lint if lintin…
awgymer Oct 29, 2024
19df044
feat(1929): add test for new pipeline lint check of local component dirs
awgymer Oct 29, 2024
5d1d44b
feat(1929): run todo linting on local subworkflows
awgymer Oct 30, 2024
5689ff6
fix: Update to latest CHANGELOG
awgymer Jan 21, 2025
3f76e99
fix: Clean up CHANGELOG.md
awgymer Jan 21, 2025
660c8a7
Update pre-commit hook editorconfig-checker/editorconfig-checker.pyth…
renovate[bot] Jan 21, 2025
8d33662
[automated] Update CHANGELOG.md
nf-core-bot Jan 21, 2025
d1f6dc7
Fix 'process.shell' in nextflow.config
ewels Jan 21, 2025
ca8b93d
Merge branch 'dev' into fix-process-shell
mashehu Jan 21, 2025
702e00c
[automated] Update CHANGELOG.md
nf-core-bot Jan 21, 2025
0b6b151
Merge pull request #3416 from ewels/fix-process-shell
ewels Jan 21, 2025
bee0520
Remove automated release tweets
ewels Jan 21, 2025
078e4ee
[automated] Update CHANGELOG.md
nf-core-bot Jan 21, 2025
48ee89c
[automated] Update CHANGELOG.md
nf-core-bot Jan 21, 2025
ed1667f
Merge pull request #3419 from ewels/remove-twitter-release-notifications
ewels Jan 21, 2025
391ae2c
Merge branch 'dev' into 1929-local-modules-use-remote-format
awgymer Jan 22, 2025
3dd2e00
fix: broken test. Need to assign component_dir to the parent dir if a…
awgymer Jan 22, 2025
262dea3
fix: Add new lint test to lint config pydantic model
awgymer Jan 22, 2025
583809c
Update python:3.12-slim Docker digest to 123be56 (#3421)
renovate[bot] Jan 23, 2025
1283406
Update pre-commit hook astral-sh/ruff-pre-commit to v0.9.3
renovate[bot] Jan 23, 2025
52e8d4b
[automated] Fix code linting
nf-core-bot Jan 23, 2025
bc3417a
Merge pull request #3256 from awgymer/1929-local-modules-use-remote-f…
awgymer Jan 24, 2025
3048627
Merge branch 'dev' into renovate/astral-sh-ruff-pre-commit-0.x
mashehu Jan 27, 2025
3be4b60
chore(deps): update dawidd6/action-download-artifact action to v8 (#3…
renovate[bot] Jan 27, 2025
61d9710
fix mypy error
mashehu Jan 27, 2025
2f71183
Merge pull request #3413 from nf-core/renovate/astral-sh-ruff-pre-com…
mashehu Jan 27, 2025
dcf27d9
Merge branch 'dev' into renovate/editorconfig-checker-editorconfig-ch…
mashehu Jan 27, 2025
f8b099c
Separate -o pipefail into separate list elements
ewels Jan 27, 2025
2d7e1a6
[automated] Update CHANGELOG.md
nf-core-bot Jan 27, 2025
df9d892
Merge pull request #3414 from nf-core/renovate/editorconfig-checker-e…
mashehu Jan 27, 2025
2e01c36
Merge pull request #3425 from ewels/o-pipefail-newline
ewels Jan 27, 2025
008dabb
update template components
mirpedrol Jan 27, 2025
ae92258
[automated] Update CHANGELOG.md
nf-core-bot Jan 27, 2025
5236c85
Merge pull request #3426 from mirpedrol/update-template-modules
mirpedrol Jan 27, 2025
92408c3
bump to v3.2.0
mirpedrol Jan 27, 2025
0d9a4f1
template line break fixes
mirpedrol Jan 27, 2025
a7d86d8
Merge pull request #3427 from mirpedrol/bump-to-3.2.0
mirpedrol Jan 27, 2025
381a6b4
update changelog
mirpedrol Jan 27, 2025
0355435
Merge pull request #3429 from mirpedrol/changelog-updates
mirpedrol Jan 27, 2025
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2 changes: 2 additions & 0 deletions CHANGELOG.md
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Original file line number Diff line number Diff line change
Expand Up @@ -4,6 +4,8 @@

### Template

- Remove automated release tweets ([#3419](https://github.com/nf-core/tools/pull/3419))

### Linting

### Modules
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33 changes: 0 additions & 33 deletions nf_core/pipeline-template/.github/workflows/release-announcements.yml
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Expand Up @@ -27,39 +27,6 @@ jobs:

${{ steps.get_topics.outputs.topics }} #nfcore #openscience #nextflow #bioinformatics

send-tweet:
runs-on: ubuntu-latest

steps:
- uses: actions/setup-python@0b93645e9fea7318ecaed2b359559ac225c90a2b # v5
with:
python-version: "3.10"
- name: Install dependencies
run: pip install tweepy==4.14.0
- name: Send tweet
shell: python
run: |
import os
import tweepy

client = tweepy.Client(
access_token=os.getenv("TWITTER_ACCESS_TOKEN"),
access_token_secret=os.getenv("TWITTER_ACCESS_TOKEN_SECRET"),
consumer_key=os.getenv("TWITTER_CONSUMER_KEY"),
consumer_secret=os.getenv("TWITTER_CONSUMER_SECRET"),
)
tweet = os.getenv("TWEET")
client.create_tweet(text=tweet)
env:
TWEET: |
Pipeline release! ${{ github.repository }} v${{ github.event.release.tag_name }} - ${{ github.event.release.name }}!

Please see the changelog: ${{ github.event.release.html_url }}
TWITTER_CONSUMER_KEY: ${{ secrets.TWITTER_CONSUMER_KEY }}
TWITTER_CONSUMER_SECRET: ${{ secrets.TWITTER_CONSUMER_SECRET }}
TWITTER_ACCESS_TOKEN: ${{ secrets.TWITTER_ACCESS_TOKEN }}
TWITTER_ACCESS_TOKEN_SECRET: ${{ secrets.TWITTER_ACCESS_TOKEN_SECRET }}

bsky-post:
runs-on: ubuntu-latest
steps:
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