Improve accessibility and responsive typography

.editorconfig

@@ -0,0 +1,32 @@
+# http://editorconfig.org
+
+root = true
+
+[*]
+charset = utf-8
+end_of_line = lf
+insert_final_newline = true
+trim_trailing_whitespace = true
+
+[*.{py,rst,ini}]
+indent_style = space
+indent_size = 4
+
+[*.{html,css,scss,json,yml,yaml,xml,toml}]
+indent_style = space
+indent_size = 2
+
+[*.md]
+trim_trailing_whitespace = false
+indent_style = space
+indent_size = 2
+
+[default.conf]
+indent_style = space
+indent_size = 2
+
+["Makefile"]
+indent_style = tab
+
+[*.{diff,patch}]
+trim_trailing_whitespace = false

.github/workflows/main.yaml

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+name: main
+
+on:
+  push:
+    branches: [main]
+  pull_request:
+    branches: [main]
+
+jobs:
+  check-branch:
+    if: ${{ github.event_name == 'pull_request' }}
+    runs-on: ubuntu-latest
+    timeout-minutes: 10
+    concurrency:
+      group: check-pr-${{ github.ref }}
+      cancel-in-progress: true
+
+    steps:
+      - uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
+
+      - name: Check if the PR's branch is updated
+        uses: osl-incubator/gh-check-pr-is-updated@1.0.0
+        with:
+          remote_branch: origin/main
+          pr_sha: ${{ github.event.pull_request.head.sha }}
+
+  build:
+    runs-on: ubuntu-latest
+    concurrency:
+      group: ci-${{ github.event_name }}-${{ github.ref }}
+      cancel-in-progress: true
+    defaults:
+      run:
+        shell: bash -l {0}
+    steps:
+      - uses: actions/checkout@v3
+
+      - uses: conda-incubator/setup-miniconda@v3
+        with:
+          miniconda-version: "latest"
+          environment-file: conda/dev.yaml
+          channels: conda-forge,nodefaults
+          activate-environment: osl-web
+          auto-update-conda: true
+          conda-solver: libmamba
+
+      - name: Install dependencies
+        run: |
+          poetry check
+          poetry install
+          python -m nltk.downloader punkt
+
+      - name: Linter
+        if: ${{ github.event_name == 'pull_request' }}
+        run: |
+          pre-commit install
+          pre-commit run --all-file --verbose
+
+      - name: Build the book
+        run: |
+          makim pages.build
+          echo "opensciencelabs.org" > build/CNAME
+
+      # Push the book's HTML to github-pages
+      - name: GitHub Pages action
+        uses: peaceiris/actions-gh-pages@v3.5.9
+        if: ${{ github.event_name == 'push' }}
+        with:
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: ./build

.gitignore

@@ -1,4 +1,130 @@
-themes/hugo-clarity/.vscode/
-themes/hugo-clarity/.github/
+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+*$py.class
 
-public
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+build/
+develop-eggs/
+dist/
+downloads/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+wheels/
+pip-wheel-metadata/
+share/python-wheels/
+*.egg-info/
+.installed.cfg
+*.egg
+MANIFEST
+
+# PyInstaller
+#  Usually these files are written by a python script from a template
+#  before PyInstaller builds the exe, so as to inject date/other infos into it.
+*.manifest
+*.spec
+
+# Installer logs
+pip-log.txt
+pip-delete-this-directory.txt
+
+# Unit test / coverage reports
+htmlcov/
+.tox/
+.nox/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*.cover
+*.py,cover
+.hypothesis/
+.pytest_cache/
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+local_settings.py
+db.sqlite3
+db.sqlite3-journal
+
+# Flask stuff:
+instance/
+.webassets-cache
+
+# Scrapy stuff:
+.scrapy
+
+# Sphinx documentation
+docs/_build/
+
+# PyBuilder
+target/
+
+# Jupyter Notebook
+.ipynb_checkpoints
+
+# IPython
+profile_default/
+ipython_config.py
+
+# pyenv
+.python-version
+
+# pipenv
+#   According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
+#   However, in case of collaboration, if having platform-specific dependencies or dependencies
+#   having no cross-platform support, pipenv may install dependencies that don't work, or not
+#   install all needed dependencies.
+#Pipfile.lock
+
+# PEP 582; used by e.g. github.com/David-OConnor/pyflow
+__pypackages__/
+
+# Celery stuff
+celerybeat-schedule
+celerybeat.pid
+
+# SageMath parsed files
+*.sage.py
+
+# Environments
+.env
+.venv
+env/
+venv/
+ENV/
+env.bak/
+venv.bak/
+
+# Spyder project settings
+.spyderproject
+.spyproject
+
+# Rope project settings
+.ropeproject
+
+# mkdocs documentation
+/site
+
+# mypy
+.mypy_cache/
+.dmypy.json
+dmypy.json
+
+# Pyre type checker
+.pyre/
+.vscode

.makim.yaml

@@ -1,10 +1,47 @@
-version: 1.0
 groups:
   pages:
-    targets:
+    tasks:
+      pre-build:
+        help: pre-build step
+        backend: bash
+        run: |
+          mkdir -p build
+          # Directory to search for .ipynb files
+          export SEARCH_DIR="pages/blog"
+
+          # Find all .ipynb files, excluding .ipynb_checkpoints,
+          # and convert them to Markdown named 'index.md'
+          find "$SEARCH_DIR" -path "*/.ipynb_checkpoints/*" -prune -o -name \
+            "*.ipynb" -exec sh -c \
+            'jupyter nbconvert --to markdown --template=theme/custom-markdown.tpl --output-dir "$(dirname "$0")" --output "index" "$0"' {} \;
+
+          # remove console colors from md files
+          find "$SEARCH_DIR" -name \
+            "index.md" -exec sh -c \
+            'cat "$(dirname "$0")/index.md" | python scripts/clean-output.py > "$(dirname "$0")/temp_index.md" && mv "$(dirname "$0")/temp_index.md" "$(dirname "$0")/index.md"' {} \;
+
       build:
-        help: build the static page with hugo
-        run: hugo --minify
+        help: build the static page
+        backend: bash
+        hooks:
+          pre-run:
+            - task: pages.pre-build
+        run: |
+          find build -mindepth 1 -maxdepth 1 -exec rm -rf {} +
+          mkdocs build --verbose --clean --strict
+          mkdir -p build/.well-known
+          cp pages/.well-known/funding-manifest-urls \
+            build/.well-known/funding-manifest-urls
+
       preview:
         help: preview the web page dynamically
-        run: hugo server
+        args:
+          run-pre-build:
+            help: Run pre-build task
+            type: bool
+            action: store_true
+        hooks:
+          pre-run:
+            - task: pages.pre-build
+              if: ${{ args.run_pre_build }}
+        run: mkdocs serve --watch pages --watch theme

.pre-commit-config.yaml

@@ -0,0 +1,62 @@
+default_stages:
+  - pre-commit
+repos:
+  - repo: https://github.com/pre-commit/pre-commit-hooks
+    rev: v4.6.0
+    hooks:
+      - id: trailing-whitespace
+        exclude: "pages/blog"
+      - id: end-of-file-fixer
+        exclude: "pages/blog"
+      - id: check-json
+      - id: check-toml
+      - id: check-xml
+        exclude: ".*.svg"
+      - id: check-builtin-literals
+      - id: check-case-conflict
+      - id: check-docstring-first
+      - id: detect-private-key
+        exclude: "theme"
+
+  - repo: https://github.com/pre-commit/mirrors-prettier
+    rev: "v3.0.2"
+    hooks:
+      - id: prettier
+        exclude: "pages/blog|theme"
+
+  - repo: local
+    hooks:
+      - id: mkdocs-build
+        name: mkdocs-build
+        entry: makim pages.build
+        files: pages
+        language: system
+        pass_filenames: false
+
+      - id: linkcheckmd
+        name: linkcheckmd
+        entry: python scripts/check-broken-links-md.py
+        language: system
+        pass_filenames: false
+
+      - id: check-internal-links
+        name: check-internal-links
+        entry: python scripts/check-broken-links-internal.py
+        language: system
+        pass_filenames: false
+
+      - id: ruff-format
+        name: ruff-format
+        entry: ruff format
+        language: system
+        pass_filenames: true
+        types:
+          - python
+
+      - id: ruff-linter
+        name: ruff-linter
+        entry: ruff check
+        language: system
+        pass_filenames: true
+        types:
+          - python

.prettierignore

@@ -0,0 +1 @@
+docs/changelog.md