* using log directory 'd:/RCompile/CRANincoming/R-devel/lme4breeding.Rcheck' * using R Under development (unstable) (2024-06-24 r86823 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * checking for file 'lme4breeding/DESCRIPTION' ... OK * this is package 'lme4breeding' version '1.0.2' * checking CRAN incoming feasibility ... [11s] NOTE Maintainer: 'Giovanny Covarrubias-Pazaran ' The Date field is over a month old. * 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 serialization versions ... OK * checking whether package 'lme4breeding' can be installed ... OK * checking installed package size ... OK * 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 ... 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 whether startup messages can be suppressed ... 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 ... [18s] 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 sizes of PDF files under 'inst/doc' ... OK * checking installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... [24s] OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [23s] ERROR Error(s) in re-building vignettes: --- re-building 'lmebreed.gxe.Rmd' using rmarkdown Quitting from lines 186-225 [unnamed-chunk-10] (lmebreed.gxe.Rmd) Error: processing vignette 'lmebreed.gxe.Rmd' failed with diagnostics: error in evaluating the argument 'x' in selecting a method for function 'as.matrix': infinite or missing values in 'x' --- failed re-building 'lmebreed.gxe.Rmd' --- re-building 'lmebreed.qg.Rmd' using rmarkdown --- finished re-building 'lmebreed.qg.Rmd' SUMMARY: processing the following file failed: 'lmebreed.gxe.Rmd' Error: Vignette re-building failed. Execution halted * checking PDF version of manual ... [32s] OK * checking HTML version of manual ... OK * DONE Status: 1 ERROR, 1 NOTE