Run.HiTME fails on SeuratObject >5.2.0 (and Seurat > 5.2.0?)

[halterc]

Hi

I tried to Run.HiTME with SeuratObject 5.4.0 and got this cryptic error:
Error in stop(.error_bplist(res)) : bad error message
I found out that the error is:

BiocParallel errors
  1 remote errors, element index: 1
  3 unevaluated and other errors
  first remote error:
Error: BiocParallel errors
  1 remote errors, element index: 1
  0 unevaluated and other errors
  first remote error:
Error: The `slot` argument of `SetAssayData()` was deprecated in SeuratObject 5.0.0 and is now defunct.

BiocParallel errors
  1 remote errors, element index: 1
  3 unevaluated and other errors
  first remote error:
Error: BiocParallel errors
  1 remote errors, element index: 1
  0 unevaluated and other errors
  first remote error:
Error: Please use the `layer` argument instead.

Downgrading SeuratObject to 5.2.0 fixed it. I think also Seurat should not be higher than 5.2.0 or it might cause similar issues, as at versions >5.2.0 slot was deprecated while at 5.2.0 it still works and only produces a warning.