ci: add separate windows workflow that uses miniconda (#1324)

.github/workflows/ci-windows.yml

@@ -0,0 +1,134 @@
+name: flopy Windows CI
+
+on:
+  schedule:
+    - cron: '0 8 * * *' # run at 8 AM UTC (12 am PST)
+  push:
+    branches:
+      - master
+      - develop
+      - 'release*'
+  pull_request:
+    branches: [master, develop]
+
+jobs:
+
+  flopy_setup:
+    name: standard installation
+    runs-on: windows-latest
+    strategy:
+      fail-fast: false
+    defaults:
+      run:
+        shell: pwsh
+
+    steps:
+
+    # check out repo
+    - name: Checkout flopy repo
+      uses: actions/checkout@v2.3.4
+
+    - name: Setup Python 3.9
+      uses: actions/setup-python@v2.2.2
+      with:
+        python-version: 3.9
+
+    - name: Upgrade pip and install wheel
+      run: |
+        python -m pip install --upgrade pip
+        pip install wheel
+
+    - name: Base flopy installation
+      run: |
+        pip install . --use-feature=in-tree-build
+
+    - name: Print flopy version
+      run: |
+        python -c "import flopy; print(flopy.__version__)"
+
+
+  flopyCI_windows:
+    name: autotests
+    needs: [flopy_setup]
+    runs-on: windows-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        python-version: [3.9, 3.8, 3.7]
+    defaults:
+      run:
+        shell: pwsh
+
+    steps:
+    # check out repo
+    - name: Checkout flopy repo
+      uses:  actions/checkout@v2.3.4
+
+    - name: Get branch name
+      uses: nelonoel/branch-name@v1.0.1
+
+    - name: Cache Miniconda
+      uses: actions/cache@v2.1.0
+      env:
+        # Increase this value to reset cache if environment.yml has changed
+        CACHE_NUMBER: 3
+      with:
+        path: ~/conda_pkgs_dir
+        key: ${{ runner.os }}-${{ matrix.python-version }}-${{ matrix.run-type }}-${{ env.CACHE_NUMBER }}-${{ hashFiles('etc/environment.yml') }}
+
+    # Standard python fails on windows without GDAL installation
+    # Using custom bash shell ("shell: bash -l {0}") with Miniconda
+    - name: Setup Miniconda
+      uses: conda-incubator/setup-miniconda@v2.1.1
+      with:
+        python-version: ${{ matrix.python-version }}
+        channels: conda-forge
+        auto-update-conda: true
+        activate-environment: flopy
+        use-only-tar-bz2: true
+
+    - name: Add packages to flopy environment using conda
+      run: |
+        conda env update --name flopy --file etc/environment.yml
+
+    - name: Upgrade pip and install wheel
+      run: |
+        python -m pip install --upgrade pip
+        pip install wheel
+
+    - name: Install pymake, xmipy, and flopy
+      run: |
+        pip install https://github.com/modflowpy/pymake/zipball/master
+        pip install xmipy
+        pip install . --use-feature=in-tree-build
+
+    - name: Prepare for the autotests
+      working-directory: ./autotest
+      run: |
+        pytest -v ci_prepare.py
+
+#    - name: Add executables directory to path on Windows (bash)
+#      run: |
+#        echo "C:\Users\runneradmin\.local\bin" >> $GITHUB_PATH
+
+    - name: Add executables directory to path on Windows (pwsh)
+      run: |
+        echo "C:\Users\runneradmin\.local\bin" | Out-File -FilePath $env:GITHUB_PATH -Encoding utf8 -Append
+
+    - name: Run pytest on autotest scripts
+      working-directory: ./autotest
+      run: |
+        pytest -v -n auto --durations=0 --cov=flopy --cov-report=xml
+
+    - name: Print coverage report before upload
+      working-directory: ./autotest
+      run: |
+        coverage report
+
+    - name: Upload coverage to Codecov
+      if:
+        github.repository_owner == 'modflowpy' && github.event_name == 'push'
+      uses: codecov/codecov-action@v2.1.0
+      with:
+        directory: ./autotest
+        file: coverage.xml

.github/workflows/ci.yml

@@ -33,9 +33,10 @@ jobs:
       with:
         python-version: 3.9
 
-    - name: Upgrade pip
+    - name: Upgrade pip and install wheel
       run: |
         python -m pip install --upgrade pip
+        pip install wheel
 
     - name: Base flopy installation
       run: |
@@ -60,9 +61,6 @@ jobs:
     - name: Checkout flopy repo
       uses: actions/checkout@v2.3.4
 
-    # Standard python fails on windows without GDAL installation. Using
-    # standard python here since only linting on linux.
-    # Use standard bash shell with standard python
     - name: Setup Python 3.8
       uses: actions/setup-python@v2.2.2
       with:
@@ -112,14 +110,6 @@ jobs:
             python-version: 3.9
             run-type: script
             test-path: run_scripts.py
-          - os: windows-latest
-            python-version: 3.9
-            run-type: std
-            test-path: ""
-          - os: windows-latest
-            python-version: 3.8
-            run-type: std
-            test-path: ""
     defaults:
       run:
         shell: bash
@@ -142,37 +132,10 @@ jobs:
         python -m pip install --upgrade pip
         pip install wheel
 
-    - name: Install Python packages on Windows
-      if: runner.os == 'Windows'
-      run: |
-        pip install -r etc/requirements.windows.pip.txt
-
     - name: Install Python packages on Linux and MacOS
-      if: runner.os != 'Windows'
       run: |
         pip install -r etc/requirements.full.pip.txt
 
-    - name: Download Python packages with GDAL dependencies on Windows
-      if: runner.os == 'Windows'
-      shell: python
-      run: |
-        import os
-        from gohlkegrabber import GohlkeGrabber
-        gg = GohlkeGrabber()
-        wheel_path = os.path.join(".", "wheels")
-        os.makedirs(wheel_path, exist_ok=True)
-        gg.retrieve(wheel_path, "gdal")
-        gg.retrieve(wheel_path, "rasterio")
-        gg.retrieve(wheel_path, "fiona")
-
-    - name: Install Python packages with GDAL dependencies on Windows
-      if: runner.os == 'Windows'
-      run: |
-        ls -ltr ./wheels/
-        pip install ./wheels/GDAL*
-        pip install ./wheels/rasterio*
-        pip install ./wheels/Fiona*
-
     - name: Add jupyter and jupytext to notebooks run
       if: matrix.run-type == 'nb'
       run: |
@@ -190,15 +153,9 @@ jobs:
         pytest -v ci_prepare.py
 
     - name: Add executables directory to path on Linux and MacOS
-      if: runner.os != 'Windows'
       run: |
         echo "$HOME/.local/bin" >> $GITHUB_PATH
 
-    - name: Add executables directory to path on Windows
-      if: runner.os == 'Windows'
-      run: |
-        echo "C:\Users\runneradmin\.local\bin" >> $GITHUB_PATH
-
     - name: Run pytest on autotest scripts
       if: matrix.run-type == 'std'
       working-directory: ./autotest