fix tests

.github/workflows/main.yml

@@ -26,8 +26,11 @@ jobs:
 
       - name: Install pip dependencies
         run: |
-          pip install ruff pytest black mpi4py pyinstrument psutil pytest-lazy-fixtures
-          pip install -r requirements.txt
+          pip install -e .
+          pip install -e .[mpi]
+          pip install -e .[profiling]
+          pip install -e .[lint]
+          pip install -e .[test]
           pip install -e .[compression]
 
       - name: Run ruff (flake8 and pydocstyle)
@@ -58,12 +61,10 @@ jobs:
 
     - name: Install pip dependencies
       run: |
-        pip install h5py
-        pip install -r requirements.txt
-        pip install zarr==2.11.3
-        pip install mpi4py numcodecs>=0.7.3 bitshuffle
-        pip install pytest pytest-lazy-fixtures
         pip install -e .
+        pip install -e .[mpi]
+        pip install -e .[compression]
+        pip install -e .[test]
 
     - name: Run serial tests
       run: pytest --doctest-modules caput/
@@ -94,8 +95,8 @@ jobs:
 
     - name: Install pip dependencies
       run: |
-        pip install .[doc]
         pip install -e .
+        pip install -e .[doc]
 
     - name: Build sphinx docs
       run: sphinx-build -W -b html doc/ doc/_build/html

pyproject.toml

@@ -45,6 +45,8 @@ mpi = ["mpi4py>=1.3"]
 compression = ["bitshuffle", "numcodecs>=0.7.3", "zarr>=2.11.0"]
 profiling = ["pyinstrument"]
 doc = ["Sphinx>=5.0", "sphinx_rtd_theme", "funcsigs", "mock"]
+lint = ["ruff", "black"]
+test = ["pytest", "pytest-lazy-fixtures"]
 
 [project.urls]
 Documentation = "https://caput.readthedocs.io/"