* using log directory 'd:/Rcompile/CRANpkg/local/4.7/rptR.Rcheck'
* using R Under development (unstable) (2026-07-09 r90225 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.3.0
    GNU Fortran (GCC) 14.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* current time: 2026-07-10 19:16:14 UTC
* checking for file 'rptR/DESCRIPTION' ... OK
* this is package 'rptR' version '0.9.23'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'rptR' can be installed ... OK
* checking installed package size ... OK
* 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 ... [0s] OK
* checking whether the package can be loaded with stated dependencies ... [0s] OK
* checking whether the package can be unloaded cleanly ... [0s] OK
* checking whether the namespace can be loaded with stated dependencies ... [0s] OK
* checking whether the namespace can be unloaded cleanly ... [0s] OK
* checking loading without being on the library search path ... [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 ... [5s] OK
* checking Rd files ... [1s] OK
* checking Rd metadata ... 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] OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [15s] ERROR
Running examples in 'rptR-Ex.R' failed
The error most likely occurred in:

> ### Name: rptProportion
> ### Title: GLMM-based Repeatability Estimation for Proportion Data
> ### Aliases: rptProportion
> 
> ### ** Examples
> 
> data(BeetlesMale)
> 
> # prepare proportion data
> BeetlesMale$Dark <- BeetlesMale$Colour
> BeetlesMale$Reddish <- (BeetlesMale$Colour-1)*-1
> BeetlesColour <- aggregate(cbind(Dark, Reddish) ~ Treatment + Population + Container, 
+      data=BeetlesMale, FUN=sum)
> 
> # Note: nboot and npermut are set to 0 for speed reasons. 
> 
> # repeatability with one grouping level
> rptProportion(cbind(Dark, Reddish) ~ (1|Population), 
+      grname=c("Population"), data=BeetlesColour, nboot=3, npermut=3)
Bootstrap Progress:
Error: Downdated VtV is not positive definite
Execution halted
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [86s] ERROR
  Running 'testthat.R' [86s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > library(rptR)
  > 
  > test_check("rptR")
  Bootstrap Progress:
  Bootstrap Progress:
  Permutation Progress for Population :
  Bootstrap Progress:
  Permutation Progress for Container:
  Bootstrap Progress:
  Permutation Progress for Population:
  Bootstrap Progress:
  Permutation Progress for Population:
  Saving _problems/test-rptBinary-14.R
  Bootstrap Progress:
  Permutation Progress for Population :
  Bootstrap Progress:
  Permutation Progress for Container :
  Permutation Progress for Population :
  Bootstrap Progress:
  Permutation Progress for Container :
  Permutation Progress for Population :
  Bootstrap Progress:
  Permutation Progress for Container:
  Bootstrap Progress:
  Permutation Progress for Container:
  Permutation Progress for Population:
  Bootstrap Progress:
  Permutation Progress for Container:
  Bootstrap Progress:
  Permutation Progress for Container:
  Permutation Progress for Habitat:
  Bootstrap Progress:
  Permutation Progress for Population:
  Bootstrap Progress:
  Permutation Progress for Container:
  Permutation Progress for Population:
  Bootstrap Progress:
  Permutation Progress for Population :
  Bootstrap Progress:
  Permutation Progress for Container:
  Bootstrap Progress:
  Permutation Progress for Population:
  Bootstrap Progress:
  Permutation Progress for Population:
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 166 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-rptBinary.R:14:1'): (code run outside of `test_that()`) ────────
  <Rcpp::exception/C++Error/error/condition>
  Error: Downdated VtV is not positive definite
  Backtrace:
       ▆
    1. └─rptR::rptBinary(...) at test-rptBinary.R:14:1
    2.   └─rptR (local) R_pe(formula, data, grname)
    3.     └─lme4::glmer(...)
    4.       └─lme4::optimizeGlmer(...)
    5.         └─lme4:::optwrap(...)
    6.           ├─base::withCallingHandlers(...)
    7.           ├─base::do.call(optfun, arglist)
    8.           └─lme4 (local) `<fn>`(...)
    9.             ├─nM$newf(fn(nM$xeval()))
   10.             │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
   11.             └─lme4 (local) fn(nM$xeval())
   12.               └─lme4 (local) pwrssUpdate(...)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 166 ]
  Error:
  ! Test failures.
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [7s] OK
* checking PDF version of manual ... [27s] OK
* checking HTML version of manual ... [6s] OK
* DONE
Status: 2 ERRORs