Running examples in ‘GiottoClass-Ex.R’ failed

image reconnection attempted, but

Re-running with no redirection of stdout/stderr.

Running examples in ‘GiottoClass-Ex.R’ failed

Re-running with no redirection of stdout/stderr.

Test failures

No such keg: /opt/homebrew/Cellar/[email protected]

Process completed with exit code 1.

Running examples in 'GiottoClass-Ex.R' failed

image reconnection attempted, but

Re-running with no redirection of stdout/stderr.

Running examples in 'GiottoClass-Ex.R' failed

Re-running with no redirection of stdout/stderr.

Test failures

Missing link or links in Rd file 'giottoToSeurat.Rd':

Undocumented arguments in Rd file 'giottoToSeuratV5.Rd'

LaTeX errors when creating PDF version.

Missing link or links in Rd file 'giottoToSeurat.Rd':

Undocumented arguments in Rd file 'giottoToSeuratV5.Rd'

LaTeX errors when creating PDF version.

unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/macosx/big-sur-arm64/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/macosx/big-sur-arm64/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/data/experiment/bin/macosx/big-sur-arm64/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/workflows/bin/macosx/big-sur-arm64/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/books/bin/macosx/big-sur-arm64/contrib/4.4:

pkgconf 2.3.0_1 is already installed and up-to-date. To reinstall 2.3.0_1, run: brew reinstall pkgconf

HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK is set: not checking for outdated dependents or dependents with broken linkage!

unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/macosx/big-sur-arm64/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/macosx/big-sur-arm64/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/data/experiment/bin/macosx/big-sur-arm64/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/workflows/bin/macosx/big-sur-arm64/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/books/bin/macosx/big-sur-arm64/contrib/4.4:

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘HDF5Array’

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘HDF5Array’

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘HDF5Array’

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘HDF5Array’

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘HDF5Array’

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘HDF5Array’

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘SummarizedExperiment’

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘SummarizedExperiment’

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘SummarizedExperiment’

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘SummarizedExperiment’

replacing previous import ‘S4Arrays::makeNindexFromArrayViewport’ by ‘DelayedArray::makeNindexFromArrayViewport’ when loading ‘SummarizedExperiment’

unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/data/experiment/bin/windows/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/workflows/bin/windows/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/books/bin/windows/contrib/4.4:

Missing link or links in Rd file 'giottoToSeurat.Rd':

Undocumented arguments in Rd file 'giottoToSeuratV5.Rd'

LaTeX errors when creating PDF version.

Missing link or links in Rd file 'giottoToSeurat.Rd':

Undocumented arguments in Rd file 'giottoToSeuratV5.Rd'

LaTeX errors when creating PDF version.

unable to access index for repository https://bioconductor.org/packages/3.18/bioc/bin/windows/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/data/annotation/bin/windows/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/data/experiment/bin/windows/contrib/4.4:

unable to access index for repository https://bioconductor.org/packages/3.18/workflows/bin/windows/contrib/4.4: