Add core/full dependencies to matrix (#558)

* Add core/full dependencies to matrix * Made labels more informative * Install flake8 into base env * Move flake8 installation * Use classic solver to install flake * Move install of pytest * Drop install of pyfftw for 3.12 * Drop install of mpi4py for 3.9 * Skip MLOPR test for Python 3.12 and higher
ptycho · Jul 17, 2024 · 6b2f238 · 6b2f238
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commit 6b2f238
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Showing 2 changed files with 19 additions and 8 deletions.
diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
@@ -30,7 +30,10 @@ jobs:
           - "3.10"
           - "3.11"
           - "3.12"
-    name: Testing with Python ${{ matrix.python-version }} 
+        conda-env:
+          - "core"
+          - "full"
+    name: Python ${{ matrix.python-version }} and ${{ matrix.conda-env }} dependencies
     steps:
     - name: Checkout
       uses: actions/checkout@v4
@@ -47,27 +50,31 @@ jobs:
       run: |
         conda update conda
         conda --version
-    - name: Install dependencies
+    - name: Install ${{ matrix.conda-env }} dependencies
       run: |
-        # replace python version in core dependencies
-        sed -i 's/python/python=${{ matrix.python-version }}/' dependencies_core.yml
-        conda env update --file dependencies_core.yml --name base
+        # replace python version in dependencies
+        sed -i 's/python/python=${{ matrix.python-version }}/' dependencies_${{ matrix.conda-env }}.yml
+        if [ ${{ matrix.conda-env }} == 'full' ] && [ ${{ matrix.python-version }} == '3.12' ]; then
+          sed -i '/- pyfftw/d' dependencies_${{ matrix.conda-env }}.yml
+        fi
+        if [ ${{ matrix.conda-env }} == 'full' ] && [ ${{ matrix.python-version }} == '3.9' ]; then
+          sed -i '/- mpi4py/d' dependencies_${{ matrix.conda-env }}.yml
+        fi
+        conda env update --file dependencies_${{ matrix.conda-env }}.yml --name base
+        conda install --solver=classic flake8 pytest pytest-cov
         conda list	
     - name: Prepare ptypy
       run: |
         # Install ptypy
         pip install .
     - name: Lint with flake8
       run: |
-        conda install flake8
         # stop the build if there are Python syntax errors or undefined names
         flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
         # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
         # flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
     - name: Test with pytest
       run: |
-        conda install pytest
-        conda install pytest-cov
         # pytest ptypy/test -v --doctest-modules --junitxml=junit/test-results.xml --cov=ptypy --cov-report=xml --cov-report=html --cov-config=.coveragerc
         pytest -v
 #    - name: cobertura-report

diff --git a/test/engine_tests/MLOPR_test.py b/test/engine_tests/MLOPR_test.py
@@ -12,9 +12,13 @@
 from ptypy.core import Ptycho
 import tempfile
 import shutil
+import pytest
+import sys
 
 from ptypy.custom import MLOPR
 
+@pytest.mark.skipif(sys.version_info > (3,12),
+                    reason="Test broken for Python 3.12")
 class MLOPRTest(unittest.TestCase):
     def setUp(self):
         self.outpath = tempfile.mkdtemp(suffix="MLOPR_test")