Fix workflows, build against JupyterLab 4, fix build TS 5 errors, lint (#346)

* Move workflows to enable them, update `update-integration-tests.yml`

from template

* Align workflows with template, use `master` for now, test against lab 4

* Add prep release/publish release workflows (older token variant)

* Switch to berry lockfile generated with lab 4

* package.json: update dependencies to lab 4, update URLs

and update style

* Update lockfile

* Lint codebase, fixing `@ts-ignore` and `error: unknown` issues

* Align jest config/tsconfig

* Install formatters required by tests

* Remove `pip-deepfreeze` environments, remove lab 3 classifier, build with lab 4

* Fix installation

* Do not add `ruff` for now

* Add changelog markers, remove unreleased version changelog

* Add rpy2 to test requirements

* Update ui-tests template

* Update links

Co-authored-by: Frédéric Collonval <fcollonval@gmail.com>

* Update README to reflect new maintenance

Co-authored-by: Frédéric Collonval <fcollonval@gmail.com>

* Lint

* Delete .github/FUNDING.yml

As per jupyterlab-contrib/jupyterlab-contrib.github.io#74 (comment)

---------

Co-authored-by: Frédéric Collonval <fcollonval@gmail.com>

Author: krassowski

.github/FUNDING.yml

@@ -11,6 +11,4 @@ jobs:
     steps:
       - uses: jupyterlab/maintainer-tools/.github/actions/binder-link@v1
         with:
-          
-          github_token: ${{ secrets.github_token }}
-          
+          github_token: ${{ secrets.GITHUB_TOKEN }}

.github/wip-workflows/update-integration-tests.yml

@@ -2,30 +2,40 @@ name: Build
 
 on:
   push:
-    branches: main
+    branches: master
   pull_request:
     branches: '*'
 
+concurrency:
+  group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
+  cancel-in-progress: true
+
 jobs:
   build:
     runs-on: ubuntu-latest
 
     steps:
     - name: Checkout
-      uses: actions/checkout@v3
+      uses: actions/checkout@v4
 
     - name: Base Setup
       uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
 
     - name: Install dependencies
-      run: python -m pip install -U jupyterlab~=3.1
+      run: python -m pip install -U "jupyterlab>=4.0.0,<5"
+
+    - name: Install R
+      uses: r-lib/actions/setup-r@v2
+
+    - name: Install R formatters
+      run: Rscript -e 'install.packages(c("styler", "formatR"))'
 
     - name: Lint the extension
       run: |
         set -eux
         jlpm
         jlpm run lint:check
-    
+
     - name: Test the extension
       run: |
         set -eux
@@ -53,7 +63,7 @@ jobs:
         pip uninstall -y "jupyterlab_code_formatter" jupyterlab
 
     - name: Upload extension packages
-      uses: actions/upload-artifact@v3
+      uses: actions/upload-artifact@v4
       with:
         name: extension-artifacts
         path: dist/jupyterlab_code_formatter*
@@ -64,14 +74,12 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-    - name: Checkout
-      uses: actions/checkout@v3
     - name: Install Python
-      uses: actions/setup-python@v4
+      uses: actions/setup-python@v5
       with:
         python-version: '3.9'
         architecture: 'x64'
-    - uses: actions/download-artifact@v3
+    - uses: actions/download-artifact@v4
       with:
         name: extension-artifacts
     - name: Install and Test
@@ -81,7 +89,7 @@ jobs:
         sudo rm -rf $(which node)
         sudo rm -rf $(which node)
 
-        pip install "jupyterlab~=3.1" jupyterlab_code_formatter*.whl
+        pip install "jupyterlab>=4.0.0,<5" jupyterlab_code_formatter*.whl
 
 
         jupyter server extension list
@@ -101,20 +109,20 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@v3
+      uses: actions/checkout@v4
 
     - name: Base Setup
       uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
 
     - name: Download extension package
-      uses: actions/download-artifact@v3
+      uses: actions/download-artifact@v4
       with:
         name: extension-artifacts
-        
+
     - name: Install the extension
       run: |
         set -eux
-        python -m pip install "jupyterlab~=3.1" jupyterlab_code_formatter*.whl
+        python -m pip install "jupyterlab>=4.0.0,<5" jupyterlab_code_formatter*.whl
 
     - name: Install dependencies
       working-directory: ui-tests
@@ -123,7 +131,7 @@ jobs:
       run: jlpm install
 
     - name: Set up browser cache
-      uses: actions/cache@v3
+      uses: actions/cache@v4
       with:
         path: |
           ${{ github.workspace }}/pw-browsers
@@ -140,7 +148,7 @@ jobs:
 
     - name: Upload Playwright Test report
       if: always()
-      uses: actions/upload-artifact@v3
+      uses: actions/upload-artifact@v4
       with:
         name: jupyterlab_code_formatter-playwright-tests
         path: |
@@ -152,6 +160,6 @@ jobs:
     runs-on: ubuntu-latest
     timeout-minutes: 15
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
       - uses: jupyterlab/maintainer-tools/.github/actions/check-links@v1

.github/wip-workflows/binder-on-pr.yml renamed to .github/workflows/binder-on-pr.yml

@@ -1,16 +1,20 @@
 name: Check Release
 on:
   push:
-    branches: ["main"]
+    branches: ["master"]
   pull_request:
     branches: ["*"]
 
+concurrency:
+  group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
+  cancel-in-progress: true
+
 jobs:
   check_release:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
       - name: Base Setup
         uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
       - name: Install Dependencies
@@ -23,7 +27,7 @@ jobs:
           token: ${{ secrets.GITHUB_TOKEN }}
 
       - name: Upload Distributions
-        uses: actions/upload-artifact@v3
+        uses: actions/upload-artifact@v4
         with:
           name: jupyterlab_code_formatter-releaser-dist-${{ github.run_number }}
           path: .jupyter_releaser_checkout/dist

.github/wip-workflows/build.yml renamed to .github/workflows/build.yml

@@ -0,0 +1,48 @@
+name: "Step 1: Prep Release"
+on:
+  workflow_dispatch:
+    inputs:
+      version_spec:
+        description: "New Version Specifier"
+        default: "next"
+        required: false
+      branch:
+        description: "The branch to target"
+        required: false
+      post_version_spec:
+        description: "Post Version Specifier"
+        required: false
+      # silent:
+      #   description: "Set a placeholder in the changelog and don't publish the release."
+      #   required: false
+      #   type: boolean
+      since:
+        description: "Use PRs with activity since this date or git reference"
+        required: false
+      since_last_stable:
+        description: "Use PRs with activity since the last stable git tag"
+        required: false
+        type: boolean
+jobs:
+  prep_release:
+    runs-on: ubuntu-latest
+    permissions:
+      contents: write
+    steps:
+      - uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
+
+      - name: Prep Release
+        id: prep-release
+        uses: jupyter-server/jupyter_releaser/.github/actions/prep-release@v2
+        with:
+          token: ${{ secrets.GITHUB_TOKEN }}
+          version_spec: ${{ github.event.inputs.version_spec }}
+          # silent: ${{ github.event.inputs.silent }}
+          post_version_spec: ${{ github.event.inputs.post_version_spec }}
+          branch: ${{ github.event.inputs.branch }}
+          since: ${{ github.event.inputs.since }}
+          since_last_stable: ${{ github.event.inputs.since_last_stable }}
+
+      - name: "** Next Step **"
+        run: |
+          echo "Optional): Review Draft Release: ${{ steps.prep-release.outputs.release_url }}"

.github/wip-workflows/check-release.yml renamed to .github/workflows/check-release.yml

@@ -0,0 +1,57 @@
+name: "Step 2: Publish Release"
+on:
+  workflow_dispatch:
+    inputs:
+      branch:
+        description: "The target branch"
+        required: false
+      release_url:
+        description: "The URL of the draft GitHub release"
+        required: false
+      steps_to_skip:
+        description: "Comma separated list of steps to skip"
+        required: false
+
+jobs:
+  publish_release:
+    runs-on: ubuntu-latest
+    permissions:
+      # This is useful if you want to use PyPI trusted publisher
+      # and NPM provenance
+      id-token: write
+    steps:
+      - uses: jupyterlab/maintainer-tools/.github/actions/base-setup@v1
+
+      - name: Populate Release
+        id: populate-release
+        uses: jupyter-server/jupyter_releaser/.github/actions/populate-release@v2
+        with:
+          token: ${{ secrets.ADMIN_GITHUB_TOKEN }}
+          branch: ${{ github.event.inputs.branch }}
+          release_url: ${{ github.event.inputs.release_url }}
+          steps_to_skip: ${{ github.event.inputs.steps_to_skip }}
+
+      - name: Finalize Release
+        id: finalize-release
+        env:
+          # The following are needed if you use legacy PyPI set up
+          # PYPI_TOKEN: ${{ secrets.PYPI_TOKEN }}
+          # PYPI_TOKEN_MAP: ${{ secrets.PYPI_TOKEN_MAP }}
+          # TWINE_USERNAME: __token__
+          NPM_TOKEN: ${{ secrets.NPM_TOKEN }}
+        uses: jupyter-server/jupyter-releaser/.github/actions/finalize-release@v2
+        with:
+          token: ${{ secrets.ADMIN_GITHUB_TOKEN }}
+          release_url: ${{ steps.populate-release.outputs.release_url }}
+
+      - name: "** Next Step **"
+        if: ${{ success() }}
+        run: |
+          echo "Verify the final release"
+          echo ${{ steps.finalize-release.outputs.release_url }}
+
+      - name: "** Failure Message **"
+        if: ${{ failure() }}
+        run: |
+          echo "Failed to Publish the Draft Release Url:"
+          echo ${{ steps.populate-release.outputs.release_url }}