• using R version 4.4.1 (2024-06-14)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-14 (Debian 14.2.0-3) 14.2.0     GNU Fortran (Debian 14.2.0-3) 14.2.0
• running under: Debian GNU/Linux trixie/sid
• using session charset: UTF-8
• checking for file ‘hesim/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘hesim’ version ‘0.5.4’
• 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 ‘hesim’ can be installed ... OK See the install log for details.
• used C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’
• checking package directory ... OK
• checking for future file timestamps ... 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 ... [1s/3s] OK
• checking whether the package can be loaded with stated dependencies ... [1s/2s] OK
• checking whether the package can be unloaded cleanly ... [1s/1s] OK
• checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
• checking whether the namespace can be unloaded cleanly ... [1s/2s] OK
• checking loading without being on the library search path ... [1s/2s] 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 ... [20s/25s] OK
• checking Rd files ... [1s/2s] 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/1s] OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking compilation flags in Makevars ... OK
• checking for GNU extensions in Makefiles ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking use of PKG_*FLAGS in Makefiles ... OK
• checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
• checking pragmas in C/C++ headers and code ... OK
• checking compilation flags used ... OK
• checking compiled code ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [15s/18s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [39s/51s] ERROR   Running ‘testthat.R’ [39s/50s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(hesim)   >   > test_check("hesim")   sample = 1   sample = 2   [ FAIL 5 | WARN 0 | SKIP 0 | PASS 1120 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test-tpmatrix.R:232:3'): qmatrix.msm() works with factor covariates and 'newdata' is one row ──   msm::qmatrix.msm(fit, newdata[1, , drop = FALSE], ci = "none") not equal to qmatrix(fit, newdata, uncertainty = "none")[, , 1].   target is msm.est, current is matrix   ── Failure ('test-tpmatrix.R:242:3'): qmatrix.msm() works with factor covariates and 'newdata' is multiple rows ──   msm::qmatrix.msm(fit, newdata[2, , drop = FALSE], ci = "none") not equal to qmatrix(fit, newdata, uncertainty = "none")[, , 2].   target is msm.est, current is matrix   ── Failure ('test-tpmatrix.R:253:3'): qmatrix.msm() works with covariates that vary by transition ──   msm::qmatrix.msm(fit, newdata[2, , drop = FALSE], ci = "none") not equal to qmatrix(fit, newdata, uncertainty = "none")[, , 2].   target is msm.est, current is matrix   ── Failure ('test-tpmatrix.R:280:3'): qmatrix.msm() works with a hidden Markov model ──   msm::qmatrix.msm(fith, covariates = list(acute = 0), ci = "none") not equal to ...[].   target is msm.est, current is matrix   ── Failure ('test-tpmatrix.R:302:3'): qmatrix.msm() does not require 'newdata' if no covariates are included in the model. ──   msm::qmatrix.msm(fit, ci = "none") not equal to qmatrix(fit, uncertainty = "none")[, , 1].   target is msm.est, current is matrix      [ FAIL 5 | WARN 0 | SKIP 0 | PASS 1120 ]   Error: Test failures   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [191s/238s] ERROR Error(s) in re-building vignettes:   ... --- re-building ‘cea.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/cea_files/figure-html/ceplane_plot-1.png 768x432 pixels, 3x8 bits/pixel, RGB Input IDAT size = 61204 bytes Input file size = 61366 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 46126   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 = 46126 Output IDAT size = 46126 bytes (15078 bytes decrease) Output file size = 46204 bytes (15162 bytes = 24.71% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/cea_files/figure-html/mce_plot-1.png 768x432 pixels, 3x8 bits/pixel, RGB Input IDAT size = 42015 bytes Input file size = 42153 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 36352   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 = 36352 Output IDAT size = 36352 bytes (5663 bytes decrease) Output file size = 36430 bytes (5723 bytes = 13.58% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/cea_files/figure-html/ceac_plot-1.png 768x432 pixels, 3x8 bits/pixel, RGB Input IDAT size = 38110 bytes Input file size = 38236 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 33890   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 = 33890 Output IDAT size = 33890 bytes (4220 bytes decrease) Output file size = 33968 bytes (4268 bytes = 11.16% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/cea_files/figure-html/ceaf_plot-1.png 768x432 pixels, 3x8 bits/pixel, RGB Input IDAT size = 32803 bytes Input file size = 32929 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 28394   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 = 28394 Output IDAT size = 28394 bytes (4409 bytes decrease) Output file size = 28472 bytes (4457 bytes = 13.54% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/cea_files/figure-html/evpi_plot-1.png 768x432 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 14221 bytes Input file size = 15091 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12357   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 = 12357 Output IDAT size = 12357 bytes (1864 bytes decrease) Output file size = 12435 bytes (2656 bytes = 17.60% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/cea_files/figure-html/totevpi-1.png 576x432 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 8299 bytes Input file size = 9169 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 7238   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 7169   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 = 1 f = 0 IDAT size = 7169 Output IDAT size = 7169 bytes (1130 bytes decrease) Output file size = 7247 bytes (1922 bytes = 20.96% decrease) --- finished re-building ‘cea.Rmd’ --- re-building ‘intro.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/intro_files/figure-html/ceac_plot-1.png 576x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 24624 bytes Input file size = 24738 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 19836   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 = 19836 Output IDAT size = 19836 bytes (4788 bytes decrease) Output file size = 19914 bytes (4824 bytes = 19.50% decrease) --- finished re-building ‘intro.Rmd’ --- re-building ‘markov-cohort.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/markov-cohort_files/figure-html/simStateprobsPlot-1.png 672x576 pixels, 3x8 bits/pixel, RGB Input IDAT size = 77222 bytes Input file size = 77408 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 65319   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 = 65319 Output IDAT size = 65319 bytes (11903 bytes decrease) Output file size = 65397 bytes (12011 bytes = 15.52% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/markov-cohort_files/figure-html/ceac-1.png 576x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 23732 bytes Input file size = 23834 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 19696   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 = 19696 Output IDAT size = 19696 bytes (4036 bytes decrease) Output file size = 19774 bytes (4060 bytes = 17.03% decrease) --- finished re-building ‘markov-cohort.Rmd’ --- re-building ‘markov-inhomogeneous-cohort.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/markov-inhomogeneous-cohort_files/figure-html/simStateprobsPlot-1.png 672x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 46747 bytes Input file size = 46885 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 38027   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 = 38027 Output IDAT size = 38027 bytes (8720 bytes decrease) Output file size = 38105 bytes (8780 bytes = 18.73% decrease)  *** caught segfault *** address 0x30, cause 'memory not mapped' Traceback:  1: fcase(outcome %in% c("Incremental costs", "Incremental NMB"), format_ci(estimate, lower, upper, costs = TRUE, digits = digits_costs), outcome == "Incremental QALYs", format_ci(estimate, lower, upper, costs = FALSE, digits = digits_qalys), outcome == "ICER" & icer_plane == "Dominates", "Dominates", outcome == "ICER" & icer_plane == "Dominated", "Dominated", outcome == "ICER" & !icer_plane %in% c("Dominates", "Dominated"), format_costs(estimate, digits = digits_costs))  2: eval(jsub, SDenv, parent.frame())  3: eval(jsub, SDenv, parent.frame())  4: `[.data.table`(y, , `:=`(value, fcase(outcome %in% c("Incremental costs", "Incremental NMB"), format_ci(estimate, lower, upper, costs = TRUE, digits = digits_costs), outcome == "Incremental QALYs", format_ci(estimate, lower, upper, costs = FALSE, digits = digits_qalys), outcome == "ICER" & icer_plane == "Dominates", "Dominates", outcome == "ICER" & icer_plane == "Dominated", "Dominated", outcome == "ICER" & !icer_plane %in% c("Dominates", "Dominated"), format_costs(estimate, digits = digits_costs))))  5: y[, `:=`(value, fcase(outcome %in% c("Incremental costs", "Incremental NMB"), format_ci(estimate, lower, upper, costs = TRUE, digits = digits_costs), outcome == "Incremental QALYs", format_ci(estimate, lower, upper, costs = FALSE, digits = digits_qalys), outcome == "ICER" & icer_plane == "Dominates", "Dominates", outcome == "ICER" & icer_plane == "Dominated", "Dominated", outcome == "ICER" & !icer_plane %in% c("Dominates", "Dominated"), format_costs(estimate, digits = digits_costs)))]  6: format.icer(., pivot_from = "outcome")  7: format(., pivot_from = "outcome")  8: icer(cea_pw_out) %>% format(pivot_from = "outcome")  9: eval(expr, envir, enclos) 10: eval(expr, envir, enclos) 11: eval_with_user_handlers(expr, envir, enclos, user_handlers) 12: withVisible(eval_with_user_handlers(expr, envir, enclos, user_handlers)) 13: withCallingHandlers(withVisible(eval_with_user_handlers(expr, envir, enclos, user_handlers)), warning = wHandler, error = eHandler, message = mHandler) 14: handle(ev <- withCallingHandlers(withVisible(eval_with_user_handlers(expr, envir, enclos, user_handlers)), warning = wHandler, error = eHandler, message = mHandler)) 15: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval_with_user_handlers(expr, envir, enclos, user_handlers)), warning = wHandler, error = eHandler, message = mHandler))) 16: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos, debug = debug, last = i == length(out), use_try = stop_on_error != 2L, keep_warning = keep_warning, keep_message = keep_message, log_echo = log_echo, log_warning = log_warning, output_handler = output_handler, include_timing = include_timing) 17: evaluate::evaluate(...) 18: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options)) 19: in_dir(input_dir(), expr) 20: in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options))) 21: eng_r(options) 22: block_exec(params) 23: call_block(x) 24: process_group(group) 25: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) if (xfun::pkg_available("rlang", "1.0.0")) rlang::entrace(e)) 26: 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) 27: process_file(text, output) 28: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet) 29: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...) 30: vweave_rmarkdown(...) 31: engine$weave(file, quiet = quiet, encoding = enc) 32: doTryCatch(return(expr), name, parentenv, handler) 33: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 34: tryCatchList(expr, classes, parentenv, handlers) 35: tryCatch({ engine$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)))}) 36: tools:::.buildOneVignette("markov-inhomogeneous-cohort.Rmd", "/home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim", TRUE, FALSE, "markov-inhomogeneous-cohort", "UTF-8", "/home/hornik/tmp/scratch/RtmpKv2aB7/file3eac9443e66d28.rds") An irrecoverable exception occurred. R is aborting now ... Segmentation fault --- re-building ‘markov-inhomogeneous-indiv.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/markov-inhomogeneous-indiv_files/figure-html/unnamed-chunk-31-1.png 672x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 51727 bytes Input file size = 51877 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 42220   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 = 42220 Output IDAT size = 42220 bytes (9507 bytes decrease) Output file size = 42298 bytes (9579 bytes = 18.46% decrease) --- finished re-building ‘markov-inhomogeneous-indiv.Rmd’ --- re-building ‘mlogit.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/mlogit_files/figure-html/stateprobs-1.png 672x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 31756 bytes Input file size = 31870 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27763   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 = 27763 Output IDAT size = 27763 bytes (3993 bytes decrease) Output file size = 27841 bytes (4029 bytes = 12.64% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/mlogit_files/figure-html/icerHeterogeneity-1.png 672x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 25343 bytes Input file size = 25457 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20625   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 = 20625 Output IDAT size = 20625 bytes (4718 bytes decrease) Output file size = 20703 bytes (4754 bytes = 18.67% decrease) --- finished re-building ‘mlogit.Rmd’ --- re-building ‘mstate.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/mstate_files/figure-html/predicted_hazards_plot-1.png 672x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 45648 bytes Input file size = 45786 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 35947   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 = 35947 Output IDAT size = 35947 bytes (9701 bytes decrease) Output file size = 36025 bytes (9761 bytes = 21.32% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/mstate_files/figure-html/stprobs_by_strategy_plot-1.png 672x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 37474 bytes Input file size = 37600 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 30328   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 = 30328 Output IDAT size = 30328 bytes (7146 bytes decrease) Output file size = 30406 bytes (7194 bytes = 19.13% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/mstate_files/figure-html/stprobs_by_timescale_plot-1.png 672x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 33615 bytes Input file size = 33741 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27450   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 = 27450 Output IDAT size = 27450 bytes (6165 bytes decrease) Output file size = 27528 bytes (6213 bytes = 18.41% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/mstate_files/figure-html/qalys_plot-1.png 576x384 pixels, 8 bits/pixel, 255 colors in palette Input IDAT size = 5464 bytes Input file size = 6319 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4024   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 = 4024 Output IDAT size = 4024 bytes (1440 bytes decrease) Output file size = 4879 bytes (1440 bytes = 22.79% decrease) --- finished re-building ‘mstate.Rmd’ --- re-building ‘psm.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/psm_files/figure-html/survcurves-1.png 576x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 66250 bytes Input file size = 66424 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 57820   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 = 57820 Output IDAT size = 57820 bytes (8430 bytes decrease) Output file size = 57898 bytes (8526 bytes = 12.84% decrease) ** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/hesim.Rcheck/vign_test/hesim/vignettes/psm_files/figure-html/stateprobs-1.png 576x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 26707 bytes Input file size = 26821 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 22317   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 = 22317 Output IDAT size = 22317 bytes (4390 bytes decrease) Output file size = 22395 bytes (4426 bytes = 16.50% decrease) --- finished re-building ‘psm.Rmd’ SUMMARY: processing the following file failed:   ‘markov-inhomogeneous-cohort.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [10s/14s] OK
• checking HTML version of manual ... [6s/10s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 2 ERRORs