Unpin numpy and run tests on numpy 1 and 2

.github/workflows/ci.yml

@@ -139,3 +139,33 @@ jobs:
           cd tests
           python -m vcztools --help
 
+  test-numpy-version:
+    name: Test numpy versions
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -el {0}
+    strategy:
+      matrix:
+        numpy: ["==1.26", ">=2"]
+    steps:
+      - uses: actions/checkout@v4
+      - name: Set up Miniconda
+        uses: conda-incubator/setup-miniconda@v3
+        with:
+          auto-update-conda: true
+          python-version: '3.11'
+          channels: conda-forge,bioconda
+      - name: Install dependencies
+        run: |
+          conda install bcftools
+          python -m pip install --upgrade pip
+          python -m pip install '.[dev]'
+          # Build the extension module in-place so pytest can find it
+          python3 setup.py build_ext --inplace
+      - name: Install numpy${{ matrix.numpy }}
+        run: |
+          python -m pip install 'numpy${{ matrix.numpy }}'
+      - name: Run tests
+        run: |
+          pytest

pyproject.toml

@@ -11,7 +11,7 @@ authors = [
   {name = "sgkit Developers", email = "[email protected]"},
 ]
 dependencies = [
-  "numpy>=1.23.5,<2",
+  "numpy>=1.23.5",
   "zarr>=2.17,<3",
   "click",
   "pyranges",