• using R Under development (unstable) (2025-12-21 r89215)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)     GNU Fortran (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘Markovchart/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘Markovchart’ version ‘2.1.5’
• package encoding: UTF-8
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘Markovchart’ can be installed ... [12s/18s] OK See the install log for details.
• checking package directory ... OK
• checking ‘build’ directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking code files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... [21s/32s] OK
• checking Rd files ... NOTE checkRd: (-1) Markovchart.Rd:154: Lost braces    154 | If either \code{h} or \code{k} have length greater than 1, then the \code{G-value} (weighted average of average cost and cost standard deviation) is calculated for all given values without optimisation. The value of the function in this case is a data frame of class code{Markov_grid} with \code{length(h)*length(k)} number of rows and three columns for \code{h}, \code{k} and the \code{G-value}.        | ^
• checking Rd metadata ... OK
• checking Rd line widths ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [9s/25s] OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [21s/87s] ERROR Error(s) in re-building vignettes: --- re-building ‘Applications.Rmd’ using rmarkdown   Time between samplings (h) 1 55.7   Critical value (k) 1 0.158   Expected cost 1 0.43   Cost sd due to process var. 1 0.5 Quitting from Applications.Rmd:90-110 [app_LDL_cost_plot] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `geom_text_contour()`: ! Problem while converting geom to grob. ℹ Error occurred in the 3rd layer. Caused by error in `[.data.table`: ! attempt access index 18/18 in VECTOR_ELT --- Backtrace:      ▆   1. ├─base::withVisible(knit_print(x, ...))   2. ├─knitr::knit_print(x, ...)   3. └─knitr:::knit_print.default(x, ...)   4. └─knitr::normal_print(x)   5. ├─base::print(x)   6. └─ggplot2 (local) `print.ggplot2::ggplot`(x)   7. ├─ggplot2::ggplot_gtable(data)   8. └─ggplot2 (local) `ggplot_gtable.ggplot2::ggplot_built`(data)   9. └─ggplot2:::by_layer(...)  10. ├─rlang::try_fetch(...)  11. │ ├─base::tryCatch(...)  12. │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)  13. │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])  14. │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)  15. │ └─base::withCallingHandlers(...)  16. └─ggplot2 (local) f(l = layers[[i]], d = data[[i]])  17. └─l$draw_geom(d, layout)  18. └─ggplot2 (local) draw_geom(..., self = self)  19. └─self$geom$draw_layer(...)  20. └─ggplot2 (local) draw_layer(..., self = self)  21. └─base::lapply(...)  22. └─ggplot2 (local) FUN(X[[i]], ...)  23. ├─rlang::inject(self$draw_panel(data, panel_params, coord, !!!params))  24. └─self$draw_panel(...)  25. └─metR (local) draw_panel(...)  26. ├─data[, `:=`(N, .N), by = .(group, piece)]  27. └─data.table:::`[.data.table`(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Applications.Rmd' failed with diagnostics: Problem while converting geom to grob. ℹ Error occurred in the 3rd layer. Caused by error in `[.data.table`: ! attempt access index 18/18 in VECTOR_ELT --- failed re-building ‘Applications.Rmd’ SUMMARY: processing the following file failed:   ‘Applications.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [7s/11s] OK
• checking HTML version of manual ... OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 1 ERROR, 1 NOTE