Update test.yml

Python 3.10 and full dependency compatibility test

Author: hangyinn

.github/workflows/test.yml

@@ -14,10 +14,10 @@ jobs:
     runs-on: ubuntu-latest
     steps:
     - uses: actions/checkout@v4
-    - name: Set up Python 3.8
+    - name: Set up Python 3.10
       uses: actions/setup-python@v5
       with:
-        python-version: 3.8
+        python-version: 3.10
     - name: Install dependencies
       run: |
         python -m pip install --upgrade pip
@@ -48,15 +48,30 @@ jobs:
     runs-on: macos-latest
     steps:
     - uses: actions/checkout@v4
-    - name: Set up Python 3.8
+    - name: Set up Python 3.10
       uses: actions/setup-python@v5
       with:
-        python-version: 3.8
+        python-version: 3.10
     - name: Install dependencies
       run: |
-        python -m pip install --upgrade pip
-        pip install wheel pytest
-        pip install .[deepcell,astir]
+        python -m pip install --upgrade pip setuptools wheel
+
+        # Core scientific stack (pin to stable, binary-available builds)
+        pip install "numpy<2.0" "scipy>=1.11,<1.16" "pandas>=2.0,<3.0" "matplotlib>=3.7,<3.11" \
+                    "scikit-image==0.19.3" "tifffile==2021.11.2" "networkx>=2.6,<3.0" \
+                    "seaborn>=0.13,<0.14" "fastcluster==1.2.6"
+
+        # Core dependencies for IMC and ecosystem
+        pip install "imctools>=2.1.8" "joblib>=1.2,<1.6" "leidenalg>=0.10.2" \
+                    "python-louvain>=0.16" "scanpy>=1.9,<1.12" "bbknn>=1.6" \
+                    "numpy-groupies>=0.9,<0.12" "parmap>=1.6,<2.0" \
+                    "seaborn-extensions>=0.2.1" "outdated>=0.2.2" "ordered-set>=4.1.0" "urlpath>=1.2.0" "PyYAML>=6.0"
+
+        # Optional backends used in your environment
+        pip install "astir==0.1.5" "DeepCell==0.12.6"
+
+        # Finally install your package
+        pip install -e .
     - name: Test with pytest
       run: |
         # Test package