CI quality of life (#176)

* Remove jupyterbook pin

* Bump dolfinx version in dockerfile and fix error.

* Bump actions in all workflows

* Fix reference

Author: jorgensd

.github/workflows/book_stable.yml

@@ -15,7 +15,7 @@ env:
 jobs:
   build-book:
     runs-on: ubuntu-latest
-    container: ghcr.io/fenics/dolfinx/lab:v0.7.2
+    container: ghcr.io/fenics/dolfinx/lab:v0.7.3
 
     env:
       PYVISTA_TRAME_SERVER_PROXY_PREFIX: "/proxy/"
@@ -35,7 +35,8 @@ jobs:
       - name: Build the book
         run: jupyter-book build . -W
 
-      - uses: actions/upload-artifact@v3
+      - uses: actions/upload-artifact@v4
+        if : always()
         with:
           name: webpage
           path: ./_build/html

.github/workflows/deploy.yml

@@ -47,16 +47,16 @@ jobs:
         uses: actions/configure-pages@v4
 
       - name: Download docs artifact
-        uses: actions/download-artifact@v3
+        uses: actions/download-artifact@v4
         with:
           name: webpage
           path: "./public"
 
       - name: Upload page artifact
-        uses: actions/upload-pages-artifact@v2
+        uses: actions/upload-pages-artifact@v3
         with:
           path: "./public"
 
       - name: Deploy coverage report to GH Pages
         id: deployment
-        uses: actions/deploy-pages@v3
+        uses: actions/deploy-pages@v4

.github/workflows/publish_docker.yml

@@ -23,26 +23,26 @@ jobs:
         uses: actions/checkout@v4
 
       - name: Set up QEMU
-        uses: docker/setup-qemu-action@v2
+        uses: docker/setup-qemu-action@v3
 
       - name: Set up Docker Buildx
-        uses: docker/setup-buildx-action@v2
+        uses: docker/setup-buildx-action@v3
 
       - name: Log in to the Container registry
-        uses: docker/login-action@v2
+        uses: docker/login-action@v3
         with:
           registry: ${{ env.REGISTRY }}
           username: ${{ github.actor }}
           password: ${{ secrets.GITHUB_TOKEN }}
 
       - name: Extract metadata (tags, labels) for Docker
         id: meta
-        uses: docker/metadata-action@v4
+        uses: docker/metadata-action@v5
         with:
           images: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}
 
       - name: Build and push Docker image
-        uses: docker/build-push-action@v3
+        uses: docker/build-push-action@v5
         with:
           context: .
           push: true

.github/workflows/test_nightly.yml

@@ -85,7 +85,8 @@ jobs:
       - name: Test building the book
         run: PYVISTA_OFF_SCREEN=false jupyter-book build  -W .
 
-      - uses: actions/upload-artifact@v3
+      - uses: actions/upload-artifact@v4
+        if: always()
         with:
           name: webpage
           path: ./_build/html

.github/workflows/test_stable.yml

@@ -72,7 +72,7 @@ jobs:
           mpirun -n 2 python3 compiler_parameters.py
 
       - name: Upload Navier-Stokes DFG 2D 3 plots
-        uses: actions/upload-artifact@v3
+        uses: actions/upload-artifact@v4
         with:
           name: DFG2D-3
           path: chapter2/figures

chapter1/nitsche.ipynb

@@ -16,7 +16,7 @@
 # # Weak imposition of Dirichlet conditions for the Poisson problem
 # Author: Jørgen S. Dokken
 #
-# In this section, we will go through how to solve the Poisson problem from the [Fundamentals](fundamentals.ipynb) tutorial using Nitsche's method {cite}`Nitsche1971`.
+# In this section, we will go through how to solve the Poisson problem from the [Fundamentals](fundamentals_code.ipynb) tutorial using Nitsche's method {cite}`Nitsche1971`.
 # The idea of weak imposition is that we add additional terms to the variational formulation to impose the boundary condition, instead of modifying the matrix system using strong imposition (lifting).
 #
 # We start by importing the required modules and creating the mesh and function space for our solution

chapter1/nitsche.py

@@ -1,6 +1,6 @@
 # Execute from root of repo as: docker buildx build --platform=linux/arm64,linux/amd64 -f docker/Dockerfile ./docker/ --progress=plain
 
-FROM ghcr.io/fenics/dolfinx/lab:v0.7.2
+FROM ghcr.io/fenics/dolfinx/lab:v0.7.3
 ARG TARGETPLATFORM
 
 
@@ -30,7 +30,7 @@ RUN if [ "$TARGETPLATFORM" = "linux/arm64" ]; then python3 -m pip install "https
 RUN if [ "$TARGETPLATFORM" = "linux/amd64" ]; then python3 -m pip install vtk; fi
 
 ADD pyproject.toml /tmp/pyproject.toml
-RUN python3 -m pip install --no-cache-dir --no-binary=h5py -v pyproject.toml
+RUN python3 -m pip install --no-cache-dir --no-binary=h5py -v .
 RUN python3 -m pip cache purge
 RUN jupyter lab build
 ENTRYPOINT ["jupyter", "lab", "--ip", "0.0.0.0", "--no-browser", "--allow-root"]

docker/Dockerfile

@@ -7,8 +7,6 @@ name = "DOLFINx_Tutorial"
 version = "0.7.2"
 dependencies = [
     "jupyter-book",
-    # Pin docutils due to https://github.com/executablebooks/jupyter-book/issues/1970#issuecomment-1466051277
-    "docutils==0.17.1",
     "meshio",
     "h5py",
     "seaborn",