MAINT: Update prek versions and refactor scheduled run (#14104)

Co-authored-by: Eric Larson <larson.eric.d@gmail.com>

Author: mne-bot

.github/workflows/spec_zero.yml .github/workflows/scheduled_updates.yml.github/workflows/spec_zero.yml renamed to .github/workflows/scheduled_updates.yml

@@ -1,4 +1,4 @@
-name: SPEC0
+name: Scheduled updates
 
 on:  # yamllint disable-line rule:truthy
   schedule:
@@ -12,12 +12,24 @@ on:  # yamllint disable-line rule:truthy
         type: boolean
 
 jobs:
-  update_versions:
+  update:
     permissions:
       contents: write
       pull-requests: write
-    name: Update dependency versions
+    name: ${{ matrix.name }}
     runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - id: spec_zero
+            name: Update dependency specifiers
+            title: 'MAINT: Update dependency specifiers'
+            body: '*Adjustments may need to be made to shims in `mne/fixes.py` and elsewhere in this or another PR. `make -C tools/dev dep` is a good starting point for finding potential updates.*'
+          - id: prek_auto_update
+            name: Update pre-commit hooks
+            title: 'MAINT: Update pre-commit hook versions'
+            body: '*Created by `prek auto-update`. The updated hooks were then run over the whole repo, so any reformatting they now do is included here.*'
     env:
       GH_TOKEN: ${{ secrets.MNE_BOT_TOKEN }}
       GITHUB_TOKEN: ${{ secrets.MNE_BOT_TOKEN }}
@@ -28,6 +40,8 @@ jobs:
       - uses: actions/checkout@v7.0.1
         with:
           persist-credentials: true
+      - name: Get commit message
+        run: echo "COMMIT_MESSAGE=$(git show -s --format=%s ${{ github.sha }})" | tee -a ${GITHUB_ENV}
       - name: Triage SSH
         run: |
           if [[ "${{ inputs.ssh }}" == "true" ]] || [[ "$COMMIT_MESSAGE" == *"[actions ssh]"* ]]; then
@@ -49,10 +63,13 @@ jobs:
       - name: Install dependencies
         run: uv pip install -e . packaging requests tomlkit prek
       - name: Update tracked dependencies
+        if: matrix.id == 'spec_zero'
         run: python ./tools/dev/spec_zero_update_versions.py
       - name: Sync updated dependencies to README
+        if: matrix.id == 'spec_zero'
         run: python tools/sync_dependencies.py
       - name: Create lockfile for old CI
+        if: matrix.id == 'spec_zero'
         # uv pip compile requires setting the python version explicitly in the command :(
         run: |
           uv pip compile pyproject.toml \
@@ -61,7 +78,9 @@ jobs:
             --resolution lowest-direct \
             --format pylock.toml --output-file tools/pylock.ci-old.toml
           python tools/github_actions_check_old_lockfile.py
-      - run: prek auto-update
+      - name: Update pre-commit hook versions
+        if: matrix.id == 'prek_auto_update'
+        run: prek auto-update
       - name: check if files changed
         run: |
           git diff && git status --porcelain
@@ -72,17 +91,23 @@ jobs:
       - uses: j178/prek-action@v2.0.6
         if: steps.status.outputs.dirty == 'true'
       - name: Create PR
+        env:
+          BRANCH: ${{ matrix.id }}
+          TITLE: ${{ matrix.title }}
+          BODY: ${{ matrix.body }}
+          RUN_URL: ${{ github.server_url }}/${{ github.repository }}/actions/runs/${{ github.run_id }}
         run: |
           set -xeo pipefail
           git diff
           git config --global user.email "50266005+mne-bot@users.noreply.github.com"
           git config --global user.name "mne[bot]"
-          git checkout -b spec_zero
-          if [ -f doc/changes/dev/dependency.rst ]; then
-            git add doc/changes/dev/dependency.rst  # one new file, others changed
-          fi
-          git commit -am "mne[bot]: Update dependency specifiers"
-          git push origin spec_zero
-          PR_NUM=$(gh pr create --base main --head spec_zero --title "MAINT: Update dependency specifiers" --body "Created by spec_zero [GitHub action](https://github.com/mne-tools/mne-python/actions/runs/${{ github.run_id }}). <br> <br> *Adjustments may need to be made to shims in \`mne/fixes.py\` and elswhere in this or another PR. \`make -C tools/dev dep\` is a good starting point for finding potential updates.*")
+          git checkout -b "$BRANCH"
+          git add -A  # doc/changes/dev/dependency.rst is a new file, the others are changed
+          git commit -m "mne[bot]: ${TITLE#MAINT: }"
+          git push origin "$BRANCH"
+          printf '%s\n\n%s\n' \
+            "Created by the \`$BRANCH\` job of this [GitHub Action run]($RUN_URL)." \
+            "$BODY" > "$RUNNER_TEMP/pr_body.md"
+          PR_NUM=$(gh pr create --base main --head "$BRANCH" --title "$TITLE" --body-file "$RUNNER_TEMP/pr_body.md")
           echo "Opened https://github.com/mne-tools/mne-python/pull/${PR_NUM}" >> $GITHUB_STEP_SUMMARY
         if: steps.status.outputs.dirty == 'true' && (success() || failure())

.pre-commit-config.yaml

@@ -1,7 +1,7 @@
 repos:
   # Ruff mne
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.15.22
+    rev: v0.16.0
     hooks:
       - id: ruff-check
         name: ruff lint mne
@@ -24,7 +24,7 @@ repos:
   # ty (type checking); deps installed by pre-commit(.ci), see [tool.ty] in
   # pyproject.toml for the checked modules and silenced rules
   - repo: https://github.com/astral-sh/ty-pre-commit
-    rev: v0.0.62
+    rev: v0.0.63
     hooks:
       - id: ty
         additional_dependencies:

pyproject.toml

@@ -134,8 +134,8 @@ name = "mne"
 readme = {content-type = "text/x-rst", file = "README.rst"}
 requires-python = ">= 3.10"
 # ↑↑↑↑↑↑↑↑↑↑↑ when this changes, bump the `--python-version` in the `uv pip compile ...`
-# command in `.github/workflows/spec_zero.yaml` (astral-sh/uv/#16333), and also the
-# `python` version for the `kind: old` matrix entry in `.github/workflows/tests.yaml`
+# command in `.github/workflows/scheduled_updates.yml` (astral-sh/uv/#16333), and also
+# the `python` version for the `kind: old` matrix entry in `.github/workflows/tests.yml`
 scripts = {mne = "mne.commands.utils:main"}
 
 [project.optional-dependencies]