Datatree import

.github/workflows/ci-additional.yaml

@@ -79,7 +79,8 @@ jobs:
           #
           # If dependencies emit warnings we can't do anything about, add ignores to
           # `xarray/tests/__init__.py`.
-          python -m pytest --doctest-modules xarray --ignore xarray/tests -Werror
+          # [MHS, 01/25/2024] Skip datatree_ documentation remove after #8572
+          python -m pytest --doctest-modules xarray --ignore xarray/tests --ignore xarray/datatree_ -Werror
 
   mypy:
     name: Mypy

.pre-commit-config.yaml

@@ -1,6 +1,7 @@
 # https://pre-commit.com/
 ci:
     autoupdate_schedule: monthly
+exclude: 'xarray/datatree_.*'
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
     rev: v4.5.0

pyproject.toml

@@ -74,7 +74,10 @@ exclude_lines = ["pragma: no cover", "if TYPE_CHECKING"]
 
 [tool.mypy]
 enable_error_code = "redundant-self"
-exclude = 'xarray/util/generate_.*\.py'
+exclude = [
+	'xarray/util/generate_.*\.py',
+	'xarray/datatree_/.*\.py',
+]
 files = "xarray"
 show_error_codes = true
 show_error_context = true

xarray/datatree_/.flake8

@@ -0,0 +1,15 @@
+[flake8]
+ignore =
+    # whitespace before ':' - doesn't work well with black
+    E203
+    # module level import not at top of file
+    E402
+    # line too long - let black worry about that
+    E501
+    # do not assign a lambda expression, use a def
+    E731
+    # line break before binary operator
+    W503
+exclude=
+    .eggs
+    doc

xarray/datatree_/.git_archival.txt

@@ -0,0 +1,4 @@
+node: $Format:%H$
+node-date: $Format:%cI$
+describe-name: $Format:%(describe:tags=true)$
+ref-names: $Format:%D$

xarray/datatree_/.github/dependabot.yml

@@ -0,0 +1,11 @@
+version: 2
+updates:
+  - package-ecosystem: pip
+    directory: "/"
+    schedule:
+      interval: daily
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      # Check for updates to GitHub Actions every weekday
+      interval: "daily"

xarray/datatree_/.github/pull_request_template.md

@@ -0,0 +1,7 @@
+<!-- Feel free to remove check-list items aren't relevant to your change -->
+
+- [ ] Closes #xxxx
+- [ ] Tests added
+- [ ] Passes `pre-commit run --all-files`
+- [ ] New functions/methods are listed in `api.rst`
+- [ ] Changes are summarized in `docs/source/whats-new.rst`

xarray/datatree_/.github/workflows/main.yaml

@@ -0,0 +1,97 @@
+name: CI
+
+on:
+  push:
+    branches:
+      - main
+  pull_request:
+    branches:
+      - main
+  schedule:
+    - cron: "0 0 * * *"
+
+jobs:
+
+  test:
+    name: ${{ matrix.python-version }}-build
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -l {0}
+    strategy:
+      matrix:
+        python-version: ["3.9", "3.10", "3.11", "3.12"]
+    steps:
+      - uses: actions/checkout@v4
+
+      - name: Create conda environment
+        uses: mamba-org/provision-with-micromamba@main
+        with:
+          cache-downloads: true
+          micromamba-version: 'latest'
+          environment-file: ci/environment.yml
+          extra-specs: |
+            python=${{ matrix.python-version }}
+
+      - name: Conda info
+        run: conda info
+
+      - name: Install datatree
+        run: |
+           python -m pip install -e . --no-deps --force-reinstall
+
+      - name: Conda list
+        run: conda list
+
+      - name: Running Tests
+        run: |
+          python -m pytest --cov=./ --cov-report=xml --verbose
+
+      - name: Upload code coverage to Codecov
+        uses: codecov/[email protected]
+        with:
+          file: ./coverage.xml
+          flags: unittests
+          env_vars: OS,PYTHON
+          name: codecov-umbrella
+          fail_ci_if_error: false
+
+
+  test-upstream:
+    name: ${{ matrix.python-version }}-dev-build
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -l {0}
+    strategy:
+      matrix:
+        python-version: ["3.9", "3.10", "3.11", "3.12"]
+    steps:
+      - uses: actions/checkout@v4
+
+      - name: Create conda environment
+        uses: mamba-org/provision-with-micromamba@main
+        with:
+          cache-downloads: true
+          micromamba-version: 'latest'
+          environment-file: ci/environment.yml
+          extra-specs: |
+            python=${{ matrix.python-version }}
+
+      - name: Conda info
+        run: conda info
+
+      - name: Install dev reqs
+        run: |
+          python -m pip install --no-deps --upgrade \
+            git+https://github.com/pydata/xarray \
+            git+https://github.com/Unidata/netcdf4-python
+
+          python -m pip install -e . --no-deps --force-reinstall
+
+      - name: Conda list
+        run: conda list
+
+      - name: Running Tests
+        run: |
+          python -m pytest --verbose

xarray/datatree_/.github/workflows/pypipublish.yaml

@@ -0,0 +1,84 @@
+name: Build distribution
+on:
+  release:
+    types:
+      - published
+  push:
+    branches:
+      - main
+  pull_request:
+    branches:
+      - main
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: true
+
+jobs:
+  build-artifacts:
+    runs-on: ubuntu-latest
+    if: github.repository == 'xarray-contrib/datatree'
+    steps:
+      - uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
+      - uses: actions/setup-python@v5
+        name: Install Python
+        with:
+          python-version: 3.9
+
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          python -m pip install build
+
+      - name: Build tarball and wheels
+        run: |
+          git clean -xdf
+          git restore -SW .
+          python -m build --sdist --wheel .
+
+
+      - uses: actions/upload-artifact@v4
+        with:
+          name: releases
+          path: dist
+
+  test-built-dist:
+    needs: build-artifacts
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/setup-python@v5
+        name: Install Python
+        with:
+          python-version: '3.10'
+      - uses: actions/download-artifact@v4
+        with:
+          name: releases
+          path: dist
+      - name: List contents of built dist
+        run: |
+          ls -ltrh
+          ls -ltrh dist
+
+      - name: Verify the built dist/wheel is valid
+        run: |
+          python -m pip install --upgrade pip
+          python -m pip install dist/xarray_datatree*.whl
+          python -c "import datatree; print(datatree.__version__)"
+
+  upload-to-pypi:
+    needs: test-built-dist
+    if: github.event_name == 'release'
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/download-artifact@v4
+        with:
+          name: releases
+          path: dist
+      - name: Publish package to PyPI
+        uses: pypa/[email protected]
+        with:
+          user: ${{ secrets.PYPI_USERNAME }}
+          password: ${{ secrets.PYPI_PASSWORD }}
+          verbose: true

xarray/datatree_/.gitignore

@@ -0,0 +1,136 @@
+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+*$py.class
+
+# 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/
+docs/source/generated
+
+# 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/
+
+# version
+_version.py
+
+# Ignore vscode specific settings
+.vscode/