CRAN Package Check Results for Maintainer ‘Jisca Huisman <jisca.huisman at gmail.com>’

Last updated on 2025-12-28 01:49:11 CET.

Package	ERROR	OK
sequoia	2	11

Package sequoia

Current CRAN status: ERROR: 2, OK: 11

Version: 3.1.3
Check: examples
Result: ERROR Running examples in ‘sequoia-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: CalcPairLL > ### Title: Calculate Likelihoods for Alternative Relationships > ### Aliases: CalcPairLL > > ### ** Examples > > # Likelihoods depend on the presumed genotyping error rate: > CalcPairLL(Pairs = data.frame(ID1='i042_2003_F', ID2='i015_2001_F'), + GenoM = Geno_griffin, Err = 1e-7, Plot=FALSE) ℹ Not conditioning on any pedigree Error in xtfrm.data.frame(list(PO = -319.07353939109, FS = -323.423047546106, : cannot xtfrm data frames Calls: CalcPairLL ... <Anonymous> -> .fun -> data.frame -> xtfrm -> xtfrm.data.frame Execution halted Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 3.1.3
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘PedComp.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘PedComp.Rmd’ --- re-building ‘quick_start_example1.rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘quick_start_example1.rmd’ --- re-building ‘vignette-age.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘vignette-age.Rmd’ --- re-building ‘vignette-main.Rmd’ using rmarkdown Quitting from vignette-main.Rmd:1254-1266 [griffin-useAge-1] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `xtfrm.data.frame()`: ! cannot xtfrm data frames --- Backtrace: x 1. \-sequoia::CalcPairLL(...) 2. \-plyr::adply(LLM, 1, find_bestrel) 3. \-plyr::ldply(...) 4. \-plyr::llply(...) 5. +-plyr:::loop_apply(n, do.ply) 6. \-plyr (local) `<fn>`(1L) 7. \-sequoia (local) .fun(piece, ...) 8. +-base::data.frame(...) 9. +-base::xtfrm(`<df[,7]>`) 10. \-base::xtfrm.data.frame(`<df[,7]>`) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'vignette-main.Rmd' failed with diagnostics: cannot xtfrm data frames --- failed re-building ‘vignette-main.Rmd’ --- re-building ‘flowchart.pdf.asis’ using asis --- finished re-building ‘flowchart.pdf.asis’ --- re-building ‘vignette_mtDNA.pdf.asis’ using asis --- finished re-building ‘vignette_mtDNA.pdf.asis’ SUMMARY: processing the following file failed: ‘vignette-main.Rmd’ Error: Vignette re-building failed. Execution halted Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc