Error in tutorial trajectory analysis

[alekseybelikov]

Attach your log file
ArchR-correlateTrajectories-32567050e2a2-Date-2024-10-25_Time-19-19-59.909418.log

Describe the bug
trajCombined <- trajGSM2 assay(trajCombined) <- t(apply(assay(trajGSM2), 1, scale)) + t(apply(assay(trajMM2), 1, scale))

Error in assays<-(*tmp*, withDimnames = withDimnames, ..., value = *vtmp*): please use 'assay(x, withDimnames=FALSE)) <- value' or 'assays(x,
withDimnames=FALSE)) <- value' when the rownames or colnames of the
supplied assay(s) are not identical to those of the receiving
SummarizedExperiment object 'x'

To Reproduce
Reproducible in the tutorial

Expected behavior
Step completed without error

[rcorces]

Hi @alekseybelikov! Thanks for using ArchR! Lately, it has been very challenging for me to keep up with maintenance of this package and all of my other
responsibilities as a PI. I have not been responding to issue posts and I have not been pushing updates to the software. We are actively searching to hire
a computational biologist to continue to develop and maintain ArchR and related tools. If you know someone who might be a good fit, please let us know!
In the meantime, your issue will likely go without a reply. Most issues with ArchR right not relate to compatibility. Try reverting to R 4.1 and Bioconductor 3.15.
Newer versions of Seurat and Matrix also are causing issues. Sorry for not being able to provide active support for this package at this time.

[alekseybelikov]

okay, this is actually solved in #1375 (comment)
perhaps the code in the tutorial should be updated too