* using log directory ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/survHE.Rcheck’
* using R Under development (unstable) (2025-02-26 r87830)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 19.1.7 (1+b1)
    Debian flang-new version 19.1.7 (1+b1)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘survHE/DESCRIPTION’ ... OK
* this is package ‘survHE’ version ‘2.0.2’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... INFO
Packages suggested but not available for checking:
  'survHEinla', 'survHEhmc', 'INLA'
* 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 ‘survHE’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-clang/survHE-00install.html' for details.
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... NOTE
  Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘make.surv.R’ ‘plot_tranformed_km.R’ ‘utils_make_surv.R’
    ‘utils_plot_survHE.R’
* 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 ... [4s/6s] OK
* checking whether the package can be loaded with stated dependencies ... [4s/5s] OK
* checking whether the package can be unloaded cleanly ... [4s/6s] OK
* checking whether the namespace can be loaded with stated dependencies ... [3s/5s] OK
* checking whether the namespace can be unloaded cleanly ... [4s/5s] OK
* checking loading without being on the library search path ... [4s/5s] 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 ... [30s/39s] OK
* checking Rd files ... [0s/1s] OK
* 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 ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [6s/8s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [36s/44s] ERROR
  Running ‘testthat.R’ [36s/44s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/tests.html
  > # * https://testthat.r-lib.org/reference/test_package.html#special-files
  > 
  > library(testthat)
  > library(survHE)
  Loading required package: flexsurv
  Loading required package: survival
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Loading required package: ggplot2
  > 
  > test_check("survHE")
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-make.surv.R:13:3'): output plots don't throw an error and return ggplot2 list ──
  Error in `select(., -matches("(Intercept)", everything()))`: i In argument: `matches("(Intercept)", everything())`.
  Caused by error in `grep()`:
  ! 'length = 3' in coercion to 'logical(1)'
  Backtrace:
       â–†
    1. ├─testthat::expect_type(plot(mle, nsim = 10), "list") at test-make.surv.R:13:3
    2. │ └─testthat::quasi_label(enquo(object), arg = "object")
    3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
    4. ├─base::plot(mle, nsim = 10)
    5. ├─survHE::plot.survHE(mle, nsim = 10)
    6. │ └─survHE:::plot_ggplot_survHE(exArgs)
    7. │   ├─dplyr::ungroup(...)
    8. │   ├─dplyr::mutate(...)
    9. │   ├─dplyr::group_by(...)
   10. │   ├─dplyr::bind_rows(...)
   11. │   │ └─rlang::list2(...)
   12. │   └─base::lapply(...)
   13. │     └─survHE (local) FUN(X[[i]], ...)
   14. │       ├─dplyr::mutate(...)
   15. │       └─survHE:::make_data_surv(...)
   16. │         └─base::lapply(...)
   17. │           └─survHE (local) FUN(X[[i]], ...)
   18. │             ├─... %>% select(strata)
   19. │             └─base::lapply(...)
   20. │               └─survHE (local) FUN(X[[i]], ...)
   21. │                 └─... %>% ...
   22. ├─dplyr::select(., strata)
   23. ├─dplyr::bind_rows(.)
   24. │ └─rlang::list2(...)
   25. ├─dplyr::mutate(., strata = paste0(names(.), "=", ., collapse = ","))
   26. ├─dplyr::slice(., x)
   27. ├─dplyr::select(., -matches("(Intercept)", everything()))
   28. ├─dplyr:::select.data.frame(., -matches("(Intercept)", everything()))
   29. │ └─tidyselect::eval_select(expr(c(...)), data = .data, error_call = error_call)
   30. │   └─tidyselect:::eval_select_impl(...)
   31. │     ├─tidyselect:::with_subscript_errors(...)
   32. │     │ └─base::withCallingHandlers(...)
   33. │     └─tidyselect:::vars_select_eval(...)
   34. │       └─tidyselect:::walk_data_tree(expr, data_mask, context_mask)
   35. │         └─tidyselect:::eval_c(expr, data_mask, context_mask)
   36. │           └─tidyselect:::reduce_sels(node, data_mask, context_mask, init = init)
   37. │             └─tidyselect:::walk_data_tree(new, data_mask, context_mask)
   38. │               └─tidyselect:::eval_context(expr, context_mask, call = error_call)
   39. │                 ├─tidyselect:::with_chained_errors(...)
   40. │                 │ └─base::withCallingHandlers(...)
   41. │                 └─rlang::eval_tidy(as_quosure(expr, env), context_mask)
   42. ├─tidyselect::matches("(Intercept)", everything())
   43. │ └─tidyselect:::flat_map_int(...)
   44. │   └─tidyselect:::map(unname(.x), .fn, ...)
   45. │     └─base::lapply(.x, .f, ...)
   46. │       └─tidyselect (local) FUN(X[[i]], ...)
   47. │         └─base::grep(needle, haystack, ...)
   48. └─base::.handleSimpleError(...)
   49.   └─tidyselect (local) h(simpleError(msg, call))
   50.     └─cli::cli_abort(c(i = msg), call = call, parent = cnd)
   51.       └─rlang::abort(...)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 0 ]
  Error: Test failures
  Execution halted
* checking PDF version of manual ... [5s/7s] OK
* checking HTML version of manual ... [1s/2s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 1 ERROR, 1 NOTE