Error in collect(): ! Failed to collect lazy table. 2.3.4 and 2.4.0 both have errors

[asmlgkj]

Thanks a lot for your knd help.

[asmlgkj]

2024-12-18 14:34:02 # Create output dir and pdf file ...
2024-12-18 14:34:02 # Read RRA result ...
31 genes fail to convert into Entrez IDs: BC003331, BC051628, BC027072, BC052040, BC061212, BC048403, BC117090, BC068281, LOC100861615, AF529169, BC026585, BC049730, 3110021N24Rik, AY761184, BC017643, BC100451, BC089597, BC030867, LOC100038947, BC100530, BC037034, BC048546, NO_CURRENT, BC080695, BC005561, BC022687, BC048502, BC029214, 4930503B20Rik, BC030336, BC017158
14 genes have duplicate Entrez IDs: 3110001I22Rik, Gm20604, Marc2, Tmem254b, Mia2, Hyal1, Tmem254c, Whsc1, Tex40, Plac9a, Palm2, A430078G23Rik, A830010M20Rik, Il1f6
Cannot connect to ExperimentHub server, using 'localHub=TRUE' instead
Using 'localHub=TRUE'
If offline, please also see BiocManager vignette section on offline use
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?
Run rlang::last_trace() to see where the error occurred.

sessionInfo()
R version 4.2.3 (2023-03-15 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 22631)

Matrix products: default

locale:
[1] LC_COLLATE=Chinese (Simplified)_China.utf8 LC_CTYPE=Chinese (Simplified)_China.utf8 LC_MONETARY=Chinese (Simplified)_China.utf8 LC_NUMERIC=C
[5] LC_TIME=Chinese (Simplified)_China.utf8

attached base packages:
[1] stats graphics grDevices utils datasets methods base

other attached packages:
[1] ggplot2_3.5.1 clusterProfiler_4.6.2 MAGeCKFlute_2.9.0

loaded via a namespace (and not attached):
[1] depmap_1.20.0 fgsea_1.24.0 colorspace_2.1-1 ggtree_3.6.2 gson_0.1.0 qvalue_2.30.0
[7] XVector_0.38.0 fs_1.6.5 aplot_0.2.4 rstudioapi_0.17.1 farver_2.1.2 graphlayouts_1.2.1
[13] ggrepel_0.9.6 bit64_4.5.2 scatterpie_0.2.4 interactiveDisplayBase_1.36.0 AnnotationDbi_1.60.2 codetools_0.2-19
[19] splines_4.2.3 cachem_1.1.0 GOSemSim_2.24.0 pathview_1.38.0 polyclip_1.10-7 jsonlite_1.8.9
[25] GO.db_3.16.0 dbplyr_2.4.0 png_0.1-8 graph_1.76.0 ggforce_0.4.2 shiny_1.10.0
[31] BiocManager_1.30.25 compiler_4.2.3 httr_1.4.7 lazyeval_0.2.2 Matrix_1.5-3 fastmap_1.2.0
[37] cli_3.6.3 later_1.4.1 tweenr_2.0.3 htmltools_0.5.8.1 tools_4.2.3 igraph_2.0.3
[43] gtable_0.3.6 glue_1.8.0 GenomeInfoDbData_1.2.9 reshape2_1.4.4 dplyr_1.1.4 rappdirs_0.3.3
[49] fastmatch_1.1-4 Rcpp_1.0.13-1 enrichplot_1.18.4 Biobase_2.58.0 vctrs_0.6.5 Biostrings_2.66.0
[55] nlme_3.1-162 ape_5.8-1 ExperimentHub_2.6.0 ggraph_2.2.1 stringr_1.5.1 mime_0.12
[61] lifecycle_1.0.4 XML_3.99-0.17 DOSE_3.24.2 AnnotationHub_3.6.0 org.Hs.eg.db_3.16.0 zlibbioc_1.44.0
[67] MASS_7.3-58.2 scales_1.3.0 tidygraph_1.3.1 promises_1.3.2 parallel_4.2.3 KEGGgraph_1.58.3
[73] httr2_1.0.7 RColorBrewer_1.1-3 yaml_2.3.10 curl_6.0.1 memoise_2.0.1 gridExtra_2.3
[79] downloader_0.4 ggfun_0.1.8 HDO.db_0.99.1 yulab.utils_0.1.8 stringi_1.8.4 RSQLite_2.3.9
[85] BiocVersion_3.16.0 S4Vectors_0.36.2 tidytree_0.4.6 BiocGenerics_0.44.0 filelock_1.0.3 BiocParallel_1.32.6
[91] GenomeInfoDb_1.34.9 rlang_1.1.4 pkgconfig_2.0.3 bitops_1.0-9 lattice_0.20-45 purrr_1.0.2
[97] treeio_1.22.0 patchwork_1.3.0 shadowtext_0.1.4 cowplot_1.1.3 bit_4.5.0.1 tidyselect_1.2.1
[103] plyr_1.8.9 magrittr_2.0.3 R6_2.5.1 IRanges_2.32.0 generics_0.1.3 DBI_1.2.3
[109] pillar_1.10.0 withr_3.0.2 KEGGREST_1.38.0 RCurl_1.98-1.14 tibble_3.2.1 crayon_1.5.3
[115] BiocFileCache_2.6.1 viridis_0.6.5 grid_4.2.3 data.table_1.16.4 blob_1.2.4 Rgraphviz_2.42.0
[121] digest_0.6.37 xtable_1.8-4 tidyr_1.3.1 httpuv_1.6.15 gridGraphics_0.5-1 stats4_4.2.3
[127] munsell_0.5.1 viridisLite_0.4.2 ggplotify_0.1.2