Fix tests (#143)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
theislab · Nov 7, 2023 · 27c0c1c · 27c0c1c
1 parent a13cde4
commit 27c0c1c
Showing 1 changed file with 8 additions and 6 deletions.
diff --git a/.github/workflows/run_tests.yml b/.github/workflows/run_tests.yml
@@ -27,10 +27,12 @@ jobs:
       fail-fast: false
       matrix:
         config:
-          - { name: "3.12", os: ubuntu-latest, python: "3.12", r: release }
-          - { name: "3.11", os: ubuntu-latest, python: "3.11", r: release }
-          - { name: "3.10", os: ubuntu-latest, python: "3.10", r: release }
-          - { name: "3.9", os: ubuntu-latest, python: "3.9", r: oldrel }
+          - { name: "3.11", os: ubuntu-latest, python: "3.11", r: release, bioc: "3.18" }
+          - { name: "3.10", os: ubuntu-latest, python: "3.10", r: release, bioc: "3.18" }
+          - { name: "3.9", os: ubuntu-latest, python: "3.9", r: release, bioc: "3.18" }
+          # Cannot test
+          # - Python 3.12 because of numba
+          # - R oldrel because of a bug in BiocFileCache that only got released to BioC 3.18+
 
     steps:
       - uses: actions/checkout@v4
@@ -73,8 +75,8 @@ jobs:
           packages: |
             bioc::SingleCellExperiment
             bioc::scRNAseq
-            bioc::BiocFileCache@2.10.1
-          # BiocFileCache because of https://github.com/Bioconductor/AnnotationHub/issues/46
+        env:
+          R_BIOC_VERSION: ${{ matrix.config.bioc }}
 
       - name: Install anndata2ri
         run: |