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jn-goe / gruffi

Granular Functional Filtering (Gruffi) to isolate stressed cells
GNU General Public License v3.0
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useEnsembl() version problem #14

Closed vertesy closed 8 months ago

vertesy commented 8 months ago

Problem

 ensembl <- biomaRt::useEnsembl("ensembl", dataset = "hsapiens_gene_ensembl")
Error in `collect()`:
! Failed to collect lazy table.
Caused by error in `db_collect()`:
! Arguments in `...` must be used.
✖ Problematic argument:
• ..1 = Inf
ℹ Did you misspell an argument name?

Solution is related to dbplyr

https://stackoverflow.com/questions/77370659/error-failed-to-collect-lazy-table-caused-by-error-in-db-collect-using

vertesy commented 8 months ago

This resolves

install.packages("devtools")
devtools::install_version("dbplyr", version = "2.3.4")

but better update BiocFileCache if u can

library(BiocManager)
install("BiocFileCache")