Last updated on 2024-08-31 23:49:11 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.2.6 | 6.69 | 881.32 | 888.01 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.2.6 | 4.41 | 611.61 | 616.02 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.2.6 | 1767.02 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.2.6 | 927.46 | ERROR | |||
| r-devel-windows-x86_64 | 1.2.6 | 9.00 | 497.00 | 506.00 | OK | |
| r-patched-linux-x86_64 | 1.2.6 | 5.64 | 554.39 | 560.03 | OK | |
| r-release-linux-x86_64 | 1.2.6 | 5.90 | 547.29 | 553.19 | OK | |
| r-release-macos-arm64 | 1.2.6 | 246.00 | OK | |||
| r-release-macos-x86_64 | 1.2.6 | 631.00 | OK | |||
| r-release-windows-x86_64 | 1.2.6 | 10.00 | 478.00 | 488.00 | OK | |
| r-oldrel-macos-arm64 | 1.2.6 | 280.00 | OK | |||
| r-oldrel-macos-x86_64 | 1.2.6 | 565.00 | OK | |||
| r-oldrel-windows-x86_64 | 1.2.6 | 12.00 | 618.00 | 630.00 | OK |
Version: 1.2.6
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘a_posteriori_dosing.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-devel/posologyr.Rcheck/vign_test/posologyr/vignettes/a_posteriori_dosing_files/figure-html/map_plot_tdm-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11821 bytes
Input file size = 11911 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10239
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10239
Output IDAT size = 10239 bytes (1582 bytes decrease)
Output file size = 10317 bytes (1594 bytes = 13.38% decrease)
--- finished re-building ‘a_posteriori_dosing.Rmd’
--- re-building ‘a_priori_dosing.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-devel/posologyr.Rcheck/vign_test/posologyr/vignettes/a_priori_dosing_files/figure-html/unnamed-chunk-3-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11565 bytes
Input file size = 11655 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10049
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10049
Output IDAT size = 10049 bytes (1516 bytes decrease)
Output file size = 10127 bytes (1528 bytes = 13.11% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-devel/posologyr.Rcheck/vign_test/posologyr/vignettes/a_priori_dosing_files/figure-html/prior_plot-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15575 bytes
Input file size = 15665 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12809
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12809
Output IDAT size = 12809 bytes (2766 bytes decrease)
Output file size = 12887 bytes (2778 bytes = 17.73% decrease)
--- finished re-building ‘a_priori_dosing.Rmd’
--- re-building ‘auc_based_dosing.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-devel/posologyr.Rcheck/vign_test/posologyr/vignettes/auc_based_dosing_files/figure-html/unnamed-chunk-2-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13053 bytes
Input file size = 13143 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11400
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11400
Output IDAT size = 11400 bytes (1653 bytes decrease)
Output file size = 11478 bytes (1665 bytes = 12.67% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-devel/posologyr.Rcheck/vign_test/posologyr/vignettes/auc_based_dosing_files/figure-html/map_plot_tdm-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 16695 bytes
Input file size = 16797 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 13682
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 13682
Output IDAT size = 13682 bytes (3013 bytes decrease)
Output file size = 13760 bytes (3037 bytes = 18.08% decrease)
--- finished re-building ‘auc_based_dosing.Rmd’
--- re-building ‘classic_posologyr_models.Rmd’ using rmarkdown
--- finished re-building ‘classic_posologyr_models.Rmd’
--- re-building ‘multiple_endpoints.Rmd’ using rmarkdown
*** caught segfault ***
address 0x5560, cause 'memory not mapped'
Traceback:
1: dev.off(dv)
2: eng_r(options)
3: block_exec(params)
4: call_block(x)
5: process_group(group)
6: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) if (xfun::pkg_available("rlang", "1.0.0")) rlang::entrace(e))
7: xfun:::handle_error(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) if (xfun::pkg_available("rlang", "1.0.0")) rlang::entrace(e)), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from lines ", loc) }, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
8: process_file(text, output)
9: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
10: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
11: vweave_rmarkdown(...)
12: engine$weave(file, quiet = quiet, encoding = enc)
13: doTryCatch(return(expr), name, parentenv, handler)
14: tryCatchOne(expr, names, parentenv, handlers[[1L]])
15: tryCatchList(expr, classes, parentenv, handlers)
16: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", engine = engine) }}, error = function(e) { OK <<- FALSE message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))})
17: tools:::.buildOneVignette("multiple_endpoints.Rmd", "/data/gannet/ripley/R/packages/tests-devel/posologyr.Rcheck/vign_test/posologyr", TRUE, FALSE, "multiple_endpoints", "UTF-8", "/tmp/Rtmpug06hI/working_dir/RtmpQA1qNC/file3b9b4f4e8d9e92.rds")
An irrecoverable exception occurred. R is aborting now ...
--- re-building ‘patient_data.Rmd’ using rmarkdown
--- finished re-building ‘patient_data.Rmd’
--- re-building ‘population_models.Rmd’ using rmarkdown
--- finished re-building ‘population_models.Rmd’
--- re-building ‘route_of_administration.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-devel/posologyr.Rcheck/vign_test/posologyr/vignettes/route_of_administration_files/figure-html/plot_map-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 16935 bytes
Input file size = 17037 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5 IDAT size = 15220
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 5 IDAT size = 15220
Output IDAT size = 15220 bytes (1715 bytes decrease)
Output file size = 15298 bytes (1739 bytes = 10.21% decrease)
--- finished re-building ‘route_of_administration.Rmd’
SUMMARY: processing the following file failed:
‘multiple_endpoints.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc