- using R version 4.5.3 RC (2026-03-04 r89586)
- using platform: x86_64-pc-linux-gnu
- R was compiled by
gcc-14 (Debian 14.3.0-12) 14.3.0
GNU Fortran (Debian 14.3.0-12) 14.3.0
- running under: Debian GNU/Linux forky/sid
- using session charset: UTF-8
- checking for file ‘wrProteo/DESCRIPTION’ ... OK
- this is package ‘wrProteo’ version ‘1.13.3’
- 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 ‘wrProteo’ 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 ... [0s/0s] OK
- checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
- checking whether the package can be unloaded cleanly ... [0s/0s] OK
- checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
- checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
- checking loading without being on the library search path ... [0s/0s] 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 ... [55s/67s] 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 installed files from ‘inst/doc’ ... OK
- checking files in ‘vignettes’ ... OK
- checking examples ... [2s/3s] ERROR
Running examples in ‘wrProteo-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: extractTestingResults
> ### Title: Extract Results From Moderated t-tests
> ### Aliases: extractTestingResults
>
> ### ** Examples
>
> grp <- factor(rep(LETTERS[c(3,1,4)],c(2,3,3)))
> set.seed(2017); t8 <- matrix(round(rnorm(208*8,10,0.4),2), ncol=8,
+ dimnames=list(paste(letters[],rep(1:8,each=26),sep=""), paste(grp,c(1:2,1:3,1:3),sep="")))
> t8[3:6,1:2] <- t8[3:6,1:2] +3 # augment lines 3:6 (c-f)
> t8[5:8,c(1:2,6:8)] <- t8[5:8,c(1:2,6:8)] -1.5 # lower lines
> t8[6:7,3:5] <- t8[6:7,3:5] +2.2 # augment lines
> ## expect to find C/A in c,d,g, (h)
> ## expect to find C/D in c,d,e,f
> ## expect to find A/D in f,g,(h)
> library(wrMisc) # for testing we'll use this package
> test8 <- moderTestXgrp(t8, grp)
> extractTestingResults(test8)
extractTestingResults : Cannot find list-element 'annot' in test8
Error in wrMisc::sampNoDeMArrayLM(stat, compNo, lstP = useFdrTy) :
unused argument (lstP = useFdrTy)
Calls: extractTestingResults
Execution halted
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes ... OK
- checking re-building of vignette outputs ... [67s/89s] ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘wrProteoVignette1.Rmd’ using rmarkdown
Quitting from wrProteoVignette1.Rmd:798-800 [results1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `wrMisc::sampNoDeMArrayLM()`:
! unused argument (lstP = useFdrTy)
---
Backtrace:
▆
1. └─wrProteo::extractTestingResults(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'wrProteoVignette1.Rmd' failed with diagnostics:
unused argument (lstP = useFdrTy)
--- failed re-building ‘wrProteoVignette1.Rmd’
--- re-building ‘wrProteoVignetteUPS1.Rmd’ using rmarkdown
Quitting from wrProteoVignetteUPS1.Rmd:576-580 [check2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `wrMisc::sampNoDeMArrayLM()`:
! unused argument (lstP = useFdrTy)
---
Backtrace:
▆
1. └─wrProteo::extractTestingResults(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'wrProteoVignetteUPS1.Rmd' failed with diagnostics:
unused argument (lstP = useFdrTy)
--- failed re-building ‘wrProteoVignetteUPS1.Rmd’
SUMMARY: processing the following files failed:
‘wrProteoVignette1.Rmd’ ‘wrProteoVignetteUPS1.Rmd’
Error: Vignette re-building failed.
Execution halted
- checking PDF version of manual ... [10s/15s] OK
- checking HTML version of manual ... [4s/8s] OK
- checking for non-standard things in the check directory ... OK
- DONE
Status: 2 ERRORs