error: Mat::init(): requested size is too large

[plantformatics]

The error arises when running mapQuery. I successfully built the reference object and can process the integrated reference using my preferred analytical framework. I should mention that I am working with scATAC-seq data (the reference is ~100,000 nuclei) and the query contains multiple libraries encompassing ~400,000 cells. The feature size is around 66K and are matched between the reference and query data sets. Any suggestions for a work around would be welcome. Thank you for producing this tool, it is a big advance for the field.

[plantformatics]

Seems the issue was the large number of query cells to be placed on the reference. I solved the problem by mapping each query library in parallel and merging the output.