* using log directory ‘/data/gannet/ripley/R/packages/tests-clang/gestate.Rcheck’
* using R Under development (unstable) (2024-04-24 r86484)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    clang version 18.1.4
    flang-new version 18.1.4
* running under: Fedora Linux 36 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘gestate/DESCRIPTION’ ... OK
* this is package ‘gestate’ version ‘1.6.0’
* 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 ‘gestate’ can be installed ... [27s/36s] OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/gestate-00install.html' for details.
* checking installed package size ... OK
* 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 ... [47s/57s] OK
* checking Rd files ... NOTE
checkRd: (-1) analyse_sim.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:61: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:68: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:70: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:72: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) analyse_sim.Rd:73: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:75: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:76: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:77: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:78: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:79: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:80: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:81: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:82: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:83: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:84: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction.Rd:85: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_KM.Rd:74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_KM.Rd:75: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_KM.Rd:76: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_KM.Rd:77: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:89: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:90: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:91: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:92: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:93: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:94: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:95: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:96: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:97: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:98: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:99: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) event_prediction_prior.Rd:100: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_KM.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_KM.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_KM.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_KM.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_tte_data.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_tte_data.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_tte_data.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_tte_data.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_tte_data_prior.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_tte_data_prior.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_tte_data_prior.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_tte_data_prior.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:68: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:70: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:72: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:73: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:75: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:79: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:80: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:81: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:82: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:83: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:84: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:85: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:86: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:90: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:91: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:92: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:93: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:94: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:95: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:96: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:97: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:98: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) nph_traj.Rd:102: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) plot_npht.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_npht.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_npht.Rd:56: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_npht.Rd:57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_npht.Rd:58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_npht.Rd:59: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulate_trials.Rd:62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials.Rd:68: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials.Rd:69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials.Rd:70: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials.Rd:71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:68: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:70: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:72: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:73: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:75: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:76: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:77: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_trials_strata.Rd:78: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:39: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:40: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summarise_analysis.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) survfit_fast.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) survfit_fast.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) survfit_fast.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) survfit_fast.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) survfit_fast.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) survfit_fast.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) survfit_fast.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [24s/31s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [23s/31s] OK
  Running ‘testthat.R’ [23s/30s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [86s/124s] OK
* checking PDF version of manual ... [12s/18s] 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 NOTE