What happened?
When a teal_slices object with count_type = "all" is created with a MultiAssayExperiment object the user is unable to add subjects filter and it says:
Warning: Error in : C stack usage 7954152 is too close to the limit
93: <Anonymous>
92: stop
91: value[[3L]]
90: tryCatchOne
89: tryCatchList
88: tryCatch
87: do
86: hybrid_chain
85: renderFunc
84: output$filter_panel-active-miniACC-subjects-cards
3: runApp
2: print.shiny.appobj
1: <Anonymous>
Example app to reproduce this error:
library(teal)
library(MultiAssayExperiment)
data(miniACC)
datasets <- init_filtered_data(list(miniACC = miniACC))
set_filter_state(
datasets = datasets,
filter = teal_slices(count_type = "all")
)
ui <- fluidPage(
fluidRow(
column(
width = 9,
"Testing MAE filters"
),
column(width = 3, datasets$ui_filter_panel("filter_panel"))
)
)
server <- function(input, output, session) {
datasets$srv_filter_panel("filter_panel")
}
shinyApp(ui, server)sessionInfo()
R version 4.3.0 (2023-04-21)
Platform: aarch64-apple-darwin20 (64-bit)
Running under: macOS 14.2.1
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.11.0
locale:
[1] en_US.UTF-8/UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
time zone: Asia/Kolkata
tzcode source: internal
attached base packages:
[1] stats4 stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] scda_0.1.6 teal_0.14.0.9041
[3] teal.data_0.3.0.9042 teal.code_0.5.0.9001
[5] MultiAssayExperiment_1.28.0 SummarizedExperiment_1.32.0
[7] Biobase_2.62.0 GenomicRanges_1.54.1
[9] GenomeInfoDb_1.38.5 IRanges_2.36.0
[11] S4Vectors_0.40.2 BiocGenerics_0.48.1
[13] MatrixGenerics_1.14.0 matrixStats_1.2.0
[15] teal.slice_0.4.0.9035 shiny_1.8.0
loaded via a namespace (and not attached):
[1] gtable_0.3.4 ggplot2_3.4.4 bslib_0.6.1
[4] htmlwidgets_1.6.4 shinyjs_2.1.0 teal.widgets_0.4.2.9001
[7] lattice_0.22-5 vctrs_0.6.5 tools_4.3.0
[10] bitops_1.0-7 generics_0.1.3 tibble_3.2.1
[13] fansi_1.0.6 pkgconfig_2.0.3 Matrix_1.6-5
[16] data.table_1.14.10 checkmate_2.3.1 lifecycle_1.0.4
[19] GenomeInfoDbData_1.2.11 compiler_4.3.0 munsell_0.5.0
[22] fontawesome_0.5.2 httpuv_1.6.14 shinyWidgets_0.8.1
[25] htmltools_0.5.7 sass_0.4.8 lazyeval_0.2.2
[28] RCurl_1.98-1.14 yaml_2.3.8 plotly_4.10.4
[31] tidyr_1.3.1 later_1.3.2 pillar_1.9.0
[34] crayon_1.5.2 jquerylib_0.1.4 ellipsis_0.3.2
[37] DelayedArray_0.28.0 cachem_1.0.8 abind_1.4-5
[40] mime_0.12 tidyselect_1.2.0 digest_0.6.34
[43] purrr_1.0.2 dplyr_1.1.4 fastmap_1.1.1
[46] grid_4.3.0 colorspace_2.1-0 cli_3.6.2
[49] SparseArray_1.2.3 logger_0.2.2 magrittr_2.0.3
[52] S4Arrays_1.2.0 utf8_1.2.4 scales_1.3.0
[55] promises_1.2.1 backports_1.4.1 httr_1.4.7
[58] XVector_0.42.0 memoise_2.0.1 shinycssloaders_1.0.0
[61] viridisLite_0.4.2 rlang_1.1.3 Rcpp_1.0.12
[64] xtable_1.8-4 glue_1.7.0 jsonlite_1.8.8
[67] teal.logger_0.1.3.9010 R6_2.5.1 zlibbioc_1.48.0
Relevant log output
No response
Code of Conduct
Contribution Guidelines
Security Policy
What happened?
When a
teal_slicesobject withcount_type = "all"is created with aMultiAssayExperimentobject the user is unable to add subjects filter and it says:Example app to reproduce this error:
sessionInfo()
Relevant log output
No response
Code of Conduct
Contribution Guidelines
Security Policy