• using R Under development (unstable) (2026-07-28 r90311)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)     GNU Fortran (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)
• running under: Fedora Linux 44 (Server Edition)
• using session charset: UTF-8 * current time: 2026-07-29 09:23:00 UTC
• using option ‘--no-stop-on-test-error’
• checking for file ‘casebase/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘casebase’ version ‘0.10.6’
• 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 ‘casebase’ can be installed ... [9s/14s] 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 whether startup messages can be suppressed ... 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 ... [14s/22s] OK
• checking Rd files ... 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 ... OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [36s/39s] ERROR   Running ‘testthat.R’ [36s/39s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(casebase)   See example usage at http://sahirbhatnagar.com/casebase/   > library(data.table)      Attaching package: 'data.table'      The following object is masked from 'package:base':          %notin%      > library(survival)   >   > test_check("casebase")   Saving _problems/test-plotSingleEventCB-39.R   [ FAIL 1 | WARN 16 | SKIP 1 | PASS 255 ]      ══ Skipped tests (1) ═══════════════════════════════════════════════════════════   • GBM is not implemented (1): 'test-gbm.R:4:1'      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test-plotSingleEventCB.R:39:5'): no error in plot method for singleEventCB objects - hazard function ──   Expected `inherits(outglm, "try-error")` to be FALSE.   Differences:   `actual`: TRUE   `expected`: FALSE         [ FAIL 1 | WARN 16 | SKIP 1 | PASS 255 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [77s/78s] ERROR Error(s) in re-building vignettes: --- re-building ‘competingRisk.Rmd’ using rmarkdown --- finished re-building ‘competingRisk.Rmd’ --- re-building ‘customizingpopTime.Rmd’ using rmarkdown --- finished re-building ‘customizingpopTime.Rmd’ --- re-building ‘plotabsRisk.Rmd’ using rmarkdown --- finished re-building ‘plotabsRisk.Rmd’ --- re-building ‘plotsmoothHazard.Rmd’ using rmarkdown Quitting from plotsmoothHazard.Rmd:68-81 [unnamed-chunk-3] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlib_error_dots_nonempty> Error in `plot()`: ! `...` must be empty. ✖ Problematic arguments: • print.cond = TRUE • main = "No Hormonal Therapy Hazard Function" --- Backtrace:     ▆  1. ├─base::plot(...)  2. └─casebase:::plot.singleEventCB(...)  3. ├─base::do.call(...)  4. └─visreg (local) `<fn>`(...)  5. └─visreg:::finalize_visreg(v, plot, ...)  6. ├─base::plot(v, ...)  7. └─visreg:::plot.visreg(v, ...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'plotsmoothHazard.Rmd' failed with diagnostics: `...` must be empty. ✖ Problematic arguments: • print.cond = TRUE • main = "No Hormonal Therapy Hazard Function" --- failed re-building ‘plotsmoothHazard.Rmd’ --- re-building ‘popTime.Rmd’ using rmarkdown --- finished re-building ‘popTime.Rmd’ --- re-building ‘smoothHazard.Rmd’ using rmarkdown Quitting from smoothHazard.Rmd:121-125 [unnamed-chunk-9] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlib_error_dots_nonempty> Error in `FUN()`: ! `...` must be empty. ✖ Problematic argument: • print.cond = TRUE --- Backtrace:      ▆   1. ├─base::plot(model4, hazard.params = list(alpha = 0.05))   2. └─casebase:::plot.singleEventCB(model4, hazard.params = list(alpha = 0.05))   3. ├─base::do.call(...)   4. └─visreg (local) `<fn>`(...)   5. └─visreg:::finalize_visreg(v, plot, ...)   6. ├─base::plot(v, ...)   7. └─visreg:::plot.visreg_list(v, ...)   8. ├─base::structure(...)   9. └─base::lapply(x, plot, ...)  10. ├─base (local) FUN(X[[i]], ...)  11. └─visreg:::plot.visreg(X[[i]], ...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'smoothHazard.Rmd' failed with diagnostics: `...` must be empty. ✖ Problematic argument: • print.cond = TRUE --- failed re-building ‘smoothHazard.Rmd’ --- re-building ‘time-varying-covariates.Rmd’ using rmarkdown --- finished re-building ‘time-varying-covariates.Rmd’ SUMMARY: processing the following files failed:   ‘plotsmoothHazard.Rmd’ ‘smoothHazard.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... 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: 2 ERRORs