CRAN Package Check Results for Maintainer ‘Brian S Yandell <brian.yandell at wisc.edu>’

Last updated on 2025-08-08 03:49:42 CEST.

Package	ERROR	NOTE	OK
qtl2ggplot	1	3	9
qtl2pattern	1		12
qtlhot		2	11
qtlnet		2	11

Package qtl2ggplot

Current CRAN status: ERROR: 1, NOTE: 3, OK: 9

Version: 1.2.6
Check: examples
Result: ERROR Running examples in ‘qtl2ggplot-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: ggplot_snpasso > ### Title: Plot SNP associations > ### Aliases: ggplot_snpasso > > ### ** Examples > > dirpath <- "https://raw.githubusercontent.com/rqtl/qtl2data/master/DOex" > > # Read DOex example cross from 'qtl2data' > DOex <- subset(qtl2::read_cross2(file.path(dirpath, "DOex.zip")), chr = "2") > > # Download genotype probabilities > tmpfile <- tempfile() > download.file(file.path(dirpath, "DOex_genoprobs_2.rds"), tmpfile, quiet=TRUE) Warning in download.file(file.path(dirpath, "DOex_genoprobs_2.rds"), tmpfile, : URL 'https://raw.githubusercontent.com/rqtl/qtl2data/master/DOex/DOex_genoprobs_2.rds': Timeout of 60 seconds was reached Error in download.file(file.path(dirpath, "DOex_genoprobs_2.rds"), tmpfile, : cannot open URL 'https://raw.githubusercontent.com/rqtl/qtl2data/master/DOex/DOex_genoprobs_2.rds' Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.2.6
Check: installed package size
Result: NOTE installed size is 5.4Mb sub-directories of 1Mb or more: doc 4.4Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package qtl2pattern

Current CRAN status: ERROR: 1, OK: 12

Version: 1.2.1
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘qtl2pattern.Rmd’ using rmarkdown Quitting from qtl2pattern.Rmd:66-71 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `download.file()`: ! cannot open URL 'https://raw.githubusercontent.com/rqtl/qtl2data/master/DOex/DOex_genoprobs_2.rds' --- Backtrace: ▆ 1. └─utils::download.file(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'qtl2pattern.Rmd' failed with diagnostics: cannot open URL 'https://raw.githubusercontent.com/rqtl/qtl2data/master/DOex/DOex_genoprobs_2.rds' --- failed re-building ‘qtl2pattern.Rmd’ SUMMARY: processing the following file failed: ‘qtl2pattern.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Package qtlhot

Current CRAN status: NOTE: 2, OK: 11

Version: 1.0.4
Check: CRAN incoming feasibility
Result: NOTE Maintainer: ‘Brian S. Yandell <brian.yandell@wisc.edu>’ No Authors@R field in DESCRIPTION. Please add one, modifying Authors@R: c(person(given = c("Elias", "Chaibub"), family = "Neto", role = "aut", email = "echaibub@hotmail.com"), person(given = c("Brian", "S"), family = "Yandell", role = "aut", email = "brian.yandell@wisc.edu"), person(given = c("Brian", "S."), family = "Yandell", role = "cre", email = "brian.yandell@wisc.edu")) as necessary. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Package qtlnet

Current CRAN status: NOTE: 2, OK: 11

Version: 1.5.4
Check: CRAN incoming feasibility
Result: NOTE Maintainer: ‘Brian S. Yandell <brian.yandell@wisc.edu>’ No Authors@R field in DESCRIPTION. Please add one, modifying Authors@R: c(person(given = c("Elias", "Chaibub"), family = "Neto", role = "aut", email = "echaibub@hotmail.com"), person(given = c("Brian", "S."), family = "yandell", role = c("aut", "cre"), email = "brian.yandell@wisc.edu")) as necessary. Found the following URLs which should use \doi (with the DOI name only): File ‘Pscdbp.Rd’: http://dx.doi.org/10.1371/journal.pgen.0020130 http://dx.doi.org/10.1214/09-AOAS288 File ‘bic.Rd’: http://dx.doi.org/10.1214/09-AOAS288 File ‘mcmc.Rd’: http://dx.doi.org/10.1214/09-AOAS288 http://dx.doi.org/10.1007/s10994-008-5057-7 File ‘parents.Rd’: http://dx.doi.org/10.1214/09-AOAS288 Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc