• using R Under development (unstable) (2025-11-04 r88982)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)     GNU Fortran (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘doseminer/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘doseminer’ version ‘0.1.2’
• 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 ‘doseminer’ can be installed ... 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 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 ... 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 installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... ERROR Running examples in ‘doseminer-Ex.R’ failed The error most likely occurred in: > ### Name: extract_from_prescription > ### Title: Extract dosage information from free-text English-language > ### prescriptions > ### Aliases: extract_from_prescription > > ### ** Examples > > extract_from_prescription(example_prescriptions) Error in `str_replace_all()`: ! `replacement` function must return a vector the same length as the   input (8), not length 1. Backtrace:      ▆   1. ├─doseminer::extract_from_prescription(example_prescriptions)   2. │ └─... %>% ...   3. ├─stringr::str_replace_all(...)   4. │ └─stringr:::check_lengths(string, pattern, replacement)   5. │ └─vctrs::vec_size_common(...)   6. ├─stringr::str_replace_all(...)   7. │ └─stringr:::check_lengths(string, pattern, replacement)   8. │ └─vctrs::vec_size_common(...)   9. ├─stringr::str_replace_all(., "[0-9]+ / week", weekly_to_daily)  10. │ └─stringr:::str_transform_all(string, pattern, replacement)  11. │ └─stringr::str_locate_all(string, pattern)  12. │ └─stringr:::check_lengths(string, pattern)  13. │ └─vctrs::vec_size_common(...)  14. ├─stringr::str_replace_all(...)  15. │ └─stringr:::check_lengths(string, pattern, replacement)  16. │ └─vctrs::vec_size_common(...)  17. ├─stringr::str_replace_all(...)  18. │ └─stringr:::check_lengths(string, pattern, replacement)  19. │ └─vctrs::vec_size_common(...)  20. ├─stringr::str_replace_all(., "(?:every|per) week|weekly", "every 7 days")  21. │ └─stringr:::check_lengths(string, pattern, replacement)  22. │ └─vctrs::vec_size_common(...)  23. ├─stringr::str_replace_all(...)  24. │ └─stringr:::check_lengths(string, pattern, replacement)  25. │ └─vctrs::vec_size_common(...)  26. ├─stringr::str_replace_all(...)  27. │ └─stringr:::check_lengths(string, pattern, replacement)  28. │ └─vctrs::vec_size_common(...)  29. ├─stringr::str_replace_all(...)  30. │ └─stringr:::check_lengths(string, pattern, replacement)  31. │ └─vctrs::vec_size_common(...)  32. ├─stringr::str_replace_all(., "times(?:/| a| per) ?", "/ ")  33. │ └─stringr:::check_lengths(string, pattern, replacement)  34. │ └─vctrs::vec_size_common(...)  35. ├─stringr::str_replace_all(...)  36. │ └─stringi::stri_replace_all_regex(...)  37. └─stringr::str_replace_all(...)  38. └─stringr:::str_transform_all(string, pattern, replacement)  39. └─cli::cli_abort(...)  40. └─rlang::abort(...) Execution halted
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... OK   Running ‘testthat.R’
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [25s/36s] ERROR Error(s) in re-building vignettes: --- re-building ‘case_study.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘case_study.Rmd’ --- re-building ‘introduction.Rmd’ using rmarkdown Quitting from introduction.Rmd:84-86 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'introduction.Rmd' failed with diagnostics: `replacement` function must return a vector the same length as the input (8), not length 1. --- failed re-building ‘introduction.Rmd’ SUMMARY: processing the following file failed:   ‘introduction.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