[python] Python 3.12 support

single-cell-data · Sep 17, 2024 · db17d38 · db17d38
1 parent 6d0e676
commit db17d38
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Showing 5 changed files with 23 additions and 5 deletions.
diff --git a/.github/workflows/python-ci-full.yml b/.github/workflows/python-ci-full.yml
@@ -25,7 +25,7 @@ jobs:
         # os: [ubuntu-22.04, macos-12, windows-2019]
         # TODO: add 3.12
         # https://github.com/single-cell-data/TileDB-SOMA/issues/1849
-        python-version: ['3.8', '3.9', '3.10', '3.11']
+        python-version: ['3.8', '3.9', '3.10', '3.11', '3.12']
         include:
           - runs-on: ubuntu-22.04
             cc: gcc-11

diff --git a/.github/workflows/python-ci-minimal.yml b/.github/workflows/python-ci-minimal.yml
@@ -29,7 +29,10 @@ jobs:
 
       matrix:
         os: [ubuntu-22.04, macos-12]
-        python-version: ['3.8', '3.11']
+        # To be committed:
+        # python-version: ['3.8', '3.12']
+        # Temp debug:
+        python-version: ['3.8', '3.11', '3.12']
         include:
           - os: ubuntu-22.04
             cc: gcc-11
@@ -43,6 +46,6 @@ jobs:
       python_version: ${{ matrix.python-version }}
       cc: ${{ matrix.cc }}
       cxx: ${{ matrix.cxx }}
-      report_codecov: ${{ matrix.python-version == '3.11' }}
-      run_lint: ${{ matrix.python-version == '3.11' }}
+      report_codecov: ${{ matrix.python-version == '3.12' }}
+      run_lint: ${{ matrix.python-version == '3.12' }}
     secrets: inherit
diff --git a/.github/workflows/python-ci-single.yml b/.github/workflows/python-ci-single.yml
@@ -110,6 +110,19 @@ jobs:
         CC: ${{ inputs.cc }}
         CXX: ${{ inputs.cxx }}
 
+    # Temporary for
+    # https://github.com/single-cell-data/SOMA/pull/222
+    # https://github.com/single-cell-data/TileDB-SOMA/pull/3001
+    - name: Install somacore branch
+      if: ${{contains(github.event.head_commit.message, 'overwrite classes to make queries use C++ re-indexer') }}
+      run: |
+          pip uninstall somacore
+          git clone [email protected]:single-cell-data/SOMA.git soma
+          cd ./SOMA
+          git checkout kerl/python-3.12
+          pip install ./
+          python -c 'import somacore; print(somacore.__version__)'
+
     - name: Show package versions
       run: python scripts/show-versions.py
 

diff --git a/.github/workflows/python-packaging.yml b/.github/workflows/python-packaging.yml
@@ -116,6 +116,8 @@ jobs:
             dotted-version: '3.10'
           - undotted-version: '311'
             dotted-version: '3.11'
+          - undotted-version: '312'
+            dotted-version: '3.12'
         wheel-name:
           - manylinux2014
           - macos-x86_64

diff --git a/apis/python/requirements_dev.txt b/apis/python/requirements_dev.txt
@@ -3,5 +3,5 @@ ruff
 pytest
 pytest-cov
 sparse
-typeguard==4.2.1
+typeguard==4.3.0
 types-setuptools