Hi Bioconductor team,

I'm seeing this warning propagate in a number of places due to S4Vectors masking utils::findMatches:

replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘AnnotationDbi’

Should we rework to use findMatches2 or something of the sort to avoid?

See related:

• https://github.com/Bioconductor/AnnotationDbi/issues/11
• https://github.com/wch/r-source/commit/32fd909429c8ded78309a4893d784efd92dc930c

It's popping up in the documentation too:

• https://bioconductor.org/packages/devel/bioc/vignettes/GenomicFeatures/inst/doc/GenomicFeatures.html
• https://bioconductor.org/packages/release/bioc/vignettes/HubPub/inst/doc/HubPub.html

Best, Mike

Hi,

This warning is actually originating from an import conflict in AnnotationDbi, which is fixed in the latest version of the package (see https://github.com/Bioconductor/AnnotationDbi/commit/ccc9f424fa361e2e2378ba4d407763c32fc10642).

Best,

H.