• using R Under development (unstable) (2026-07-01 r90203)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     Debian clang version 22.1.8 (1)     Debian flang version 22.1.8 (1)
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8 * current time: 2026-07-02 16:47:28 UTC
• checking for file ‘HaDeX2/DESCRIPTION’ ... OK
• this is package ‘HaDeX2’ version ‘1.0.0’
• package encoding: UTF-8
• checking CRAN incoming feasibility ... [2s/4s] OK
• 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 ‘HaDeX2’ can be installed ... OK See the install log for details.
• 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 ... [2s/4s] OK
• checking whether the package can be loaded with stated dependencies ... [2s/4s] OK
• checking whether the package can be unloaded cleanly ... [2s/3s] OK
• checking whether the namespace can be loaded with stated dependencies ... [2s/3s] OK
• checking whether the namespace can be unloaded cleanly ... [3s/3s] OK
• checking loading without being on the library search path ... [3s/4s] OK
• checking whether startup messages can be suppressed ... [2s/3s] 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 ... [21s/27s] OK
• checking Rd files ... [1s/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 installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [143s/113s] OK Examples with CPU (user + system) or elapsed time > 5s                                               user system elapsed plot_differential_uptake_curve 9.524 0.505 8.008 plot_differential_butterfly 9.053 0.472 7.384 plot_coverage_heatmap 8.703 0.302 5.775 plot_differential_chiclet 8.551 0.391 7.947 plot_volcano 7.672 0.259 7.716 plot_manhattan 7.323 0.282 7.250 calculate_aggregated_test_results 6.119 0.498 5.275 create_p_diff_uptake_dataset_with_confidence 5.868 0.414 6.448 plot_uncertainty 5.771 0.123 5.856 create_p_diff_uptake_dataset 5.006 0.355 4.425 show_p_diff_uptake_data 4.785 0.376 5.100 Examples with CPU time > 2.5 times elapsed time                          user system elapsed ratio calculate_back_exchange 1.864 0.063 0.738 2.611
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [156s/137s] OK   Running ‘spelling.R’ [0s/0s]   Running ‘testthat.R’ [155s/136s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [138s/163s] OK
• checking PDF version of manual ... [8s/12s] OK
• checking HTML version of manual ... [6s/10s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: OK