Merge pull request #98 from BioimageAnalysisCoreWEHI/fix_dependency

Dependency changes
- Added back napari-aicsimageio>0.7
- pinned numpy>2
- Added 'napari[all]' to avoid separate pyqt5 installation
- removed Python 3.11 support temporarily, until we remove napari-aicsimageio dependency

.github/workflows/test_and_deploy.yml

@@ -21,7 +21,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ["3.8", "3.9", "3.10", "3.11"]
+        python-version: ["3.8", "3.9", "3.10"]
     env:
       DISPLAY: ":99.0"
     steps:
@@ -95,7 +95,7 @@ jobs:
       - name: Set up Python
         uses: actions/setup-python@v4
         with:
-          python-version: "3.11"
+          python-version: "3.10"
       - name: Install dependencies
         run: |
           python -m pip install --upgrade pip setuptools wheel

core/pyproject.toml

@@ -45,10 +45,9 @@ dependencies = [
     "dask[distributed]",
     "fsspec>=2022.8.2",
     "importlib_resources",
-    # Older tifffile are not compatible with aicsimageio, see: https://github.com/AllenCellModeling/aicsimageio/issues/518
     "napari-workflows>=0.2.8",
     "npy2bdv",
-    "numpy",
+    "numpy<2",
     "pandas",
     "pyclesperanto_prototype>=0.20.0",
     "pyopencl",

plugin/pyproject.toml

@@ -43,18 +43,14 @@ dependencies = [
     "importlib_resources",
     "lls_core",
     # The lower bound is because we need this Python 3.8 fix: https://github.com/hanjinliu/magic-class/pull/108
-    # The upper bound is because we are waiting on https://github.com/hanjinliu/magic-class/issues/128
-    "magic-class>=0.7.5,<0.8.0",
+    "magic-class>=0.7.5",
     "magicgui<0.8.0",
-    # Currently commented out to avoid installation issues, although
-    # This can be reinstated once https://github.com/pypa/pip/pull/12095 is merged
-    # "napari-aicsimageio>=0.7.2",
-    "napari-spreadsheet",
+    "napari-aicsimageio>=0.7.2",
     "napari-workflow-inspector",
     "napari-workflows>=0.2.8",
-    "napari>=0.4.11",
+    "napari[all]>=0.4.11",
     "npy2bdv",
-    "numpy",
+    "numpy<2",
     "psutil",
     "pyclesperanto_prototype>=0.20.0",
     "pydantic",