pyproject.toml (#103)

* pyproject.toml files the pypi version and the poetry version

* replace the setup.py by a pyproject.toml

* replace the requirements.txt and the requirements-dev.txt file in the workflow by pip install

* update notebooks

* remove the requirements.txt

* remove the requirements.txt

* remove the requirements-dev.txt from the conda-deployment.yml workflow

* fix testing jupyter notebooks

* link  jupyter kernel to the conda environment

* use shell: bash -el {0} in the steps

* remove the jupyter notebook tests from the conda-deployment.yml workflow

* separate jupyter notebooks to a separate workflow

* correct workflow

* return the workflow dependency

* correct the trigger key

* add branched to the workflow_run

* merge the .flake8 config file to the pyproject.toml

* merge the pytest.ini file to the pytroject.toml

* use workflow_call instead of workflow_run

* add fix to the conda-deployment.yml

* add fix to the conda-deployment.yml

* add fix 2

* use the entire path to the workflow

* update path to reusable workflow

* use uses instead of steps

* remove the secret: inheret

* fix initialization issue

* connect the notbook testing with the pypi-deployment

* fix issue

* use caching

* unify path

* return notebook tests to conda-deployment.yml workflow

* return notebook tests to conda-deployment.yml workflow

* install the package in normal mode

* remove the --no-deps in the dev installation

* update examples

* move the package to src root dir

* add include dir in the pyproject.toml

* remove unnecessary pass statement

* change the where statement in the pyproject.toml

* Revert "change the where statement in the pyproject.toml"

This reverts commit 06b692c.

* update conda-workflow

* add package-dir

* add install statement in the test step

* add install statement in the test step

* remove the package-dir from pytproject.toml

* use python -m build instead of setup.py install

* remove the setup.py and use new command for the pyproject.toml

* remove poetry file

.github/workflows/conda-deployment.yml

@@ -23,13 +23,13 @@ jobs:
           environment-file: environment.yml
           activate-environment: test
           python-version: ${{ matrix.python-version }}
-          channels: conda-forge,defaults
+          channels: conda-forge
           channel-priority: true
           show-channel-urls: true
 
       - name: Install dev-dependencies
         run: |
-            python -m pip install -r requirements-dev.txt
+            pip install .[dev]
 
       - name: Generate coverage report
         shell: bash -el {0}
@@ -38,6 +38,7 @@ jobs:
           conda list
           conda config --show-sources
           conda config --show
+          pip install .
           pytest -sv -m "not plot"
 
   Optional-packages:
@@ -60,13 +61,13 @@ jobs:
           environment-file: environment-optional-packages.yml
           activate-environment: test
           python-version: ${{ matrix.python-version }}
-          channels: conda-forge,defaults
+          channels: conda-forge
           channel-priority: true
           show-channel-urls: true
 
       - name: Install dev-dependencies
         run: |
-            python -m pip install -r requirements-dev.txt
+            pip install .[dev]
 
       - name: Generate coverage report
         shell: bash -el {0}
@@ -76,4 +77,12 @@ jobs:
           conda list
           conda config --show-sources
           conda config --show
+          pip install .
           pytest -sv
+
+      - name: test Jupyter notebook
+        shell: bash -el {0}
+        run: |
+          conda activate test
+          pip install .
+          pytest --nbval -k ".ipynb"

.github/workflows/pypi-deployment.yml

@@ -33,8 +33,7 @@ jobs:
 
       - name: Install dependencies
         run: |
-            pip install -r requirements.txt -r requirements-dev.txt
-            python setup.py install
+            pip install .[dev]
 
       - name: Generate coverage report
         run: |
@@ -73,12 +72,12 @@ jobs:
 
       - name: Install dependencies
         run: |
-            pip install -r requirements-optional-packages.txt -r requirements-dev.txt
-            python setup.py install
+            pip install .[dev,viz]
 
-      - name: Generate coverage report
+      - name: Run Tests
         run: |
           python -m pytest -v --cov=pyramids --cov-report=xml
 
       - name: Upload coverage reports to Codecov with GitHub Action
         uses: codecov/codecov-action@v3
+

.github/workflows/pypi-release.yml

@@ -27,5 +27,6 @@ jobs:
                   TWINE_USERNAME: ${{ secrets.PYPI_USERS }}
                   TWINE_PASSWORD: ${{ secrets.PYPI_PASSWORD }}
               run: |
-                  python setup.py sdist bdist_wheel
+                  pip install build
+                  python -m build
                   twine upload dist/*

.pre-commit-config.yaml

@@ -1,7 +1,7 @@
 fail_fast: true
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.6.0
+    rev: v5.0.0
     hooks:
       - id: end-of-file-fixer
         name: "[py -  check] validate yaml"
@@ -58,19 +58,19 @@ repos:
         files: ^pyramids/
 
   - repo: https://github.com/pycqa/flake8
-    rev: 7.1.0
+    rev: 7.1.1
     hooks:
       - id: flake8
+        additional_dependencies: [Flake8-pyproject]
         name: "[py   - check] flake8"
-#        language_version: python3.9
         exclude: ^(examples/|tests/)
 
   #- repo: https://github.com/psf/black
   #  rev: 22.8.0
   #  hooks:
   #    - id: black
   - repo: https://github.com/ambv/black
-    rev: 24.4.2
+    rev: 24.10.0
     hooks:
       - id: black
         name: "[py   - format] black"

HISTORY.rst

@@ -236,3 +236,10 @@ is deprecated.
 * update the miniconda workflow in ci.
 * update gdal to 3.10 and update the DataSource to Dataset in the `FeatureCollection.file_name`.
 * add `libgdal-netcdf` and `libgdal-hdf4` to the conda dependencies.
+
+0.7.2 (2024-12-**)
+------------------
+
+Dev
+"""
+* replace the setup.py with pyproject.toml