Open
Description
What happened?
While running the Kaplan-Meier module (tm_g_km
) I see a warning:
Warning: the
strat
element name of thevariables
list argument toh_tbl_coxph_pairwise() was deprecated in tern 0.9.4. Please use the name
stratainstead of
stratin the
variables` argument.
sessionInfo()
R version 4.5.0 (2025-04-11 ucrt)
Platform: x86_64-w64-mingw32/x64
Running under: Windows 11 x64 (build 22631)
Matrix products: default
LAPACK version 3.12.1
locale:
[1] LC_COLLATE=Spanish_Spain.utf8 LC_CTYPE=Spanish_Spain.utf8
[3] LC_MONETARY=Spanish_Spain.utf8 LC_NUMERIC=C
[5] LC_TIME=Spanish_Spain.utf8
time zone: Europe/Madrid
tzcode source: internal
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] dplyr_1.1.4 shinytest2_0.4.1
[3] teal.modules.hermes_0.2.0.9003 testthat_3.2.3
[5] teal_0.16.0.9005 teal.slice_0.6.0.9003
[7] teal.data_0.7.0.9002 teal.code_0.6.1.9000
[9] shiny_1.10.0 ggplot2_3.5.2
[11] pkgdown_2.1.2 devtools_2.4.5
[13] usethis_3.1.0
loaded via a namespace (and not attached):
[1] splines_4.5.0 later_1.4.2 hermes_1.12.0
[4] filelock_1.0.3 tibble_3.2.1 lifecycle_1.0.4
[7] httr2_1.1.2 rutils_0.0.2.92 Rdpack_2.6.4
[10] nestcolor_0.1.3.9000 gert_2.1.5 edgeR_4.6.1
[13] doParallel_1.0.17 rprojroot_2.0.4 processx_3.8.6
[16] lattice_0.22-7 crosstalk_1.2.1 credentials_2.0.2
[19] MultiAssayExperiment_1.34.0 backports_1.5.0 magrittr_2.0.3
[22] limma_3.64.0 sass_0.4.10 rmarkdown_2.29
[25] jquerylib_0.1.4 yaml_2.3.10 remotes_2.5.0
[28] httpuv_1.6.16 askpass_1.2.1 sessioninfo_1.2.3
[31] pkgbuild_1.4.7 cowplot_1.1.3 DBI_1.2.3
[34] RColorBrewer_1.1-3 abind_1.4-8 pkgload_1.4.0
[37] GenomicRanges_1.60.0 purrr_1.0.4 BiocGenerics_0.54.0
[40] rappdirs_0.3.3 circlize_0.4.16 GenomeInfoDbData_1.2.14
[43] IRanges_2.42.0 S4Vectors_0.46.0 ggrepel_0.9.6
[46] gitcreds_0.1.2 teal.widgets_0.4.3.9002 teal.reporter_0.4.0.9004
[49] codetools_0.2-20 DelayedArray_0.34.1 DT_0.33
[52] xml2_1.3.8 tidyselect_1.2.1 shape_1.4.6.1
[55] UCSC.utils_1.4.0 shinyRadioMatrix_0.2.1 farver_2.1.2
[58] shinyWidgets_0.9.0 matrixStats_1.5.0 stats4_4.5.0
[61] BiocFileCache_2.16.0 jsonlite_2.0.0 GetoptLong_1.0.5
[64] ellipsis_0.3.2 survival_3.8-3 iterators_1.0.14
[67] systemfonts_1.2.3 foreach_1.5.2 tools_4.5.0
[70] progress_1.2.3 ragg_1.4.0 rtables_0.6.12.9000
[73] Rcpp_1.0.14 glue_1.8.0 gridExtra_2.3
[76] SparseArray_1.8.0 BiocBaseUtils_1.10.0 DESeq2_1.48.0
[79] xfun_0.52 MatrixGenerics_1.20.0 ggfortify_0.4.17
[82] GenomeInfoDb_1.44.0 withr_3.0.2 formatR_1.14
[85] fastmap_1.2.0 shinyjs_2.1.0 openssl_2.3.2
[88] callr_3.7.6 digest_0.6.37 R6_2.6.1
[91] mime_0.13 textshaping_1.0.1 colorspace_2.1-1
[94] biomaRt_2.64.0 RSQLite_2.3.11 tidyr_1.3.1
[97] generics_0.1.4 renv_1.1.4 prettyunits_1.2.0
[100] httr_1.4.7
[ reached 'max' / getOption("max.print") -- omitted 70 entries ]
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