@@ -29,9 +29,6 @@ jobs:

         with:

           python-version: '3.9'

-      - name: Install scanpy

-        run: python -m pip install --upgrade pip setuptools wheel scanpy owlready2

-

       - name: Install quarto

         run: |

           sudo curl -o quarto-linux-amd64.deb -L https://github.com/quarto-dev/quarto-cli/releases/download/v1.4.551/quarto-1.4.551-linux-amd64.deb

@@ -42,6 +39,8 @@ jobs:

         run: |

           BiocManager::install(ask=FALSE)

           BiocManager::install("magick")

+          BiocManager::install("reticulate")

+          reticulate::py_install("owlready2", pip=TRUE)

           saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)

         shell: Rscript {0}