Update GitHub Actions (#4394)

Co-authored-by: renovate[bot] <29139614+renovate[bot]@users.noreply.github.com>

Author: renovate[bot]

.github/workflows/clean-up.yml

@@ -10,7 +10,7 @@ jobs:
       issues: write
       pull-requests: write
     steps:
-      - uses: actions/stale@eb5cf3af3ac0a1aa4c9c45633dd1ae542a27a899 # v10
+      - uses: actions/stale@1e223db275d687790206a7acac4d1a11bd6fe629 # v10
         with:
           stale-issue-message: "This issue has been tagged as awaiting-changes or awaiting-feedback by an nf-core contributor. Remove stale label or add a comment otherwise this issue will be closed in 20 days."
           stale-pr-message: "This PR has been tagged as awaiting-changes or awaiting-feedback by an nf-core contributor. Remove stale label or add a comment if it is still useful."

.github/workflows/codspeed.yml

@@ -30,7 +30,7 @@ jobs:
       - name: Set up Python
         uses: actions/setup-python@ece7cb06caefa5fff74198d8649806c4678c61a1 # v6
         with:
-          python-version: "3.10"
+          python-version: "3.14"
 
       - name: Install Nextflow
         uses: nf-core/setup-nextflow@b4ec1bc7c16a94435159de94a05253542fddf6ef # v3
@@ -56,7 +56,7 @@ jobs:
       # import/start-up cost, which CodSpeed's instruction-counting
       # "simulation" instrument can't see. Use "walltime" mode instead.
       - name: Run start-up benchmarks
-        uses: CodSpeedHQ/action@9f3a37ece7abc84992501a7fcd54d1704f3458fa # v4.18.4
+        uses: CodSpeedHQ/action@f99becdce5e5d51fd556489ebef684f4ecfd6286 # v4.18.5
         with:
           mode: walltime
           run: uv run pytest benchmarks/test_startup_benchmarks.py --codspeed

nf_core/pipeline-template/.github/workflows/clean-up.yml

@@ -10,7 +10,7 @@ jobs:
       issues: write
       pull-requests: write
     steps:
-      - uses: actions/stale@eb5cf3af3ac0a1aa4c9c45633dd1ae542a27a899 # v10
+      - uses: actions/stale@1e223db275d687790206a7acac4d1a11bd6fe629 # v10
         with:
           stale-issue-message: "This issue has been tagged as awaiting-changes or awaiting-feedback by an nf-core contributor. Remove stale label or add a comment otherwise this issue will be closed in 20 days."
           stale-pr-message: "This PR has been tagged as awaiting-changes or awaiting-feedback by an nf-core contributor. Remove stale label or add a comment if it is still useful."