diff --git a/.github/workflows/apple.yml b/.github/workflows/apple.yml index 8ca2f4e..69b4683 100644 --- a/.github/workflows/apple.yml +++ b/.github/workflows/apple.yml @@ -21,6 +21,7 @@ jobs: python-version: ["3.10", "3.11", "3.12", "3.13"] env: + MPLBACKEND: Agg # https://github.com/orgs/community/discussions/26434 PYTHONPATH: /Users/runner/work/physicelldataloader/physicelldataloader steps: @@ -33,7 +34,7 @@ jobs: run: | brew install ffmpeg imagemagick python -m pip install --upgrade pip - python -m pip install flake8 pytest anndata bioio matplotlib numpy pandas requests scipy vtk + python -m pip install flake8 pytest anndata bioio bioio-ome-tiff matplotlib neuroglancer numpy pandas requests scikit-image scipy vtk python -m pip install /Users/runner/work/physicelldataloader/physicelldataloader -v #if [ -f requirements.txt ]; then pip install -r requirements.txt; fi - name: lint with flake8 diff --git a/.github/workflows/linux.yml b/.github/workflows/linux.yml index 1a01ad7..4884b40 100644 --- a/.github/workflows/linux.yml +++ b/.github/workflows/linux.yml @@ -21,6 +21,7 @@ jobs: python-version: ["3.10", "3.11", "3.12", "3.13"] env: + MPLBACKEND: Agg # https://github.com/orgs/community/discussions/26434 PYTHONPATH: /home/runner/work/physicelldataloader/physicelldataloader steps: @@ -33,7 +34,7 @@ jobs: run: | sudo apt install ffmpeg imagemagick python -m pip install --upgrade pip - python -m pip install flake8 pytest anndata bioio matplotlib numpy pandas requests scipy vtk + python -m pip install flake8 pytest anndata bioio bioio-ome-tiff matplotlib neuroglancer numpy pandas requests scikit-image scipy vtk python -m pip install /home/runner/work/physicelldataloader/physicelldataloader -v #if [ -f requirements.txt ]; then pip install -r requirements.txt; fi - name: lint with flake8 diff --git a/.github/workflows/windows.yml b/.github/workflows/windows.yml index 235e012..d114976 100644 --- a/.github/workflows/windows.yml +++ b/.github/workflows/windows.yml @@ -21,6 +21,7 @@ jobs: python-version: ["3.10", "3.11", "3.12", "3.13"] env: + MPLBACKEND: Agg # https://github.com/orgs/community/discussions/26434 PYTHONPATH: D:\a\physicelldataloader\physicelldataloader steps: @@ -33,7 +34,7 @@ jobs: run: | choco install ffmpeg imagemagick python -m pip install --upgrade pip - python -m pip install flake8 pytest anndata bioio matplotlib numpy pandas requests scipy vtk + python -m pip install flake8 pytest anndata bioio bioio-ome-tiff matplotlib neuroglancer numpy pandas requests scikit-image scipy vtk python -m pip install D:\a\physicelldataloader\physicelldataloader -v #echo 'set PYTHONPATH=D:\a\physicelldataloader\physicelldataloader' >> $GITHUB_ENV #if [ -f requirements.txt ]; then pip install -r requirements.txt; fi