Merge branch 'dev' into renovate/gitpod-workspace-base

Author: mashehu

.pre-commit-config.yaml

@@ -1,6 +1,6 @@
 repos:
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.9.5
+    rev: v0.9.9
     hooks:
       - id: ruff # linter
         args: [--fix, --exit-non-zero-on-fix] # sort imports and fix

CHANGELOG.md

@@ -6,6 +6,7 @@
 
 - Remove the on `pull_request_target` trigger and `pull_request` types from the download test. Also drop `push` triggers on other CI tests. ([#3399](https://github.com/nf-core/tools/pull/3399))
 - Add nf-core template version badges to README ([#3396](https://github.com/nf-core/tools/pull/3396))
+- Add Bluesky badge to readme ([#3475](https://github.com/nf-core/tools/pull/3475))
 
 ### Linting
 
@@ -35,6 +36,8 @@
 - docs: fix contributing link in the main README ([#3459](https://github.com/nf-core/tools/pull/3459))
 - Cleanup: Removed Redundant if Condition ([#3468](https://github.com/nf-core/tools/pull/3468))
 - chore(deps): update gitpod/workspace-base docker digest to 7f35e40 ([#3473](https://github.com/nf-core/tools/pull/3473))
+- chore(deps): update python:3.12-slim docker digest to aaa3f8c ([#3474](https://github.com/nf-core/tools/pull/3474))
+- chore(deps): update pre-commit hook astral-sh/ruff-pre-commit to v0.9.9 ([#3470](https://github.com/nf-core/tools/pull/3470))
 
 ## [v3.2.0 - Pewter Pangolin](https://github.com/nf-core/tools/releases/tag/3.2.0) - [2025-01-27]
 

Dockerfile

@@ -1,4 +1,4 @@
-FROM python:3.12-slim@sha256:34656cd90456349040784165b9decccbcee4de66f3ead0a1168ba893455afd1e
+FROM python:3.12-slim@sha256:aaa3f8cb64dd64e5f8cb6e58346bdcfa410a108324b0f28f1a7cc5964355b211
 LABEL authors="[email protected],[email protected]" \
     description="Docker image containing requirements for nf-core/tools"
 

nf_core/pipeline-template/.github/workflows/linting_comment.yml

@@ -11,7 +11,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Download lint results
-        uses: dawidd6/action-download-artifact@20319c5641d495c8a52e688b7dc5fada6c3a9fbc # v8
+        uses: dawidd6/action-download-artifact@07ab29fd4a977ae4d2b275087cf67563dfdf0295 # v9
         with:
           workflow: linting.yml
           workflow_conclusion: completed

nf_core/pipeline-template/README.md

@@ -29,6 +29,7 @@
 
 {% endif -%}
 {%- if is_nfcore -%}[![Get help on Slack](http://img.shields.io/badge/slack-nf--core%20%23{{ short_name }}-4A154B?labelColor=000000&logo=slack)](https://nfcore.slack.com/channels/{{ short_name }}){% endif -%}
+{%- if is_nfcore -%}[![Follow on Bluesky](https://img.shields.io/badge/bluesky-%40nf__core-1185fe?labelColor=000000&logo=bluesky)](https://bsky.app/profile/nf-co.re){% endif -%}
 {%- if is_nfcore -%}[![Follow on Mastodon](https://img.shields.io/badge/mastodon-nf__core-6364ff?labelColor=FFFFFF&logo=mastodon)](https://mstdn.science/@nf_core){% endif -%}
 {%- if is_nfcore -%}[![Watch on YouTube](http://img.shields.io/badge/youtube-nf--core-FF0000?labelColor=000000&logo=youtube)](https://www.youtube.com/c/nf-core)