• using R version 4.0.3 (2020-10-10)
• using platform: x86_64-pc-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘SightabilityModel/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘SightabilityModel’ version ‘1.4.1’
• 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 serialization versions ... OK
• checking whether package ‘SightabilityModel’ can be installed ... 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 R 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 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 ... [16s/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 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 ... [18s/20s] OK
  Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
  Sight.Est 5.838 0.031 6.427
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking re-building of vignette outputs ... [187s/212s] WARNING
  Error(s) in re-building vignettes:
    ...
  --- re-building ‘MoosePopR-SightabilityPopR-Demo.Rmd’ using rmarkdown
  New names:
  * `Lone Cows` -> Lone.Cows
  * `Cow W/1 \r\ncalf` -> Cow.W.1...calf
  * `Cow W/2 calves` -> Cow.W.2.calves
  * `Lone \r\ncalf` -> Lone...calf
  * `Unk Age/Sex` -> Unk.Age.Sex
  * ...
  New names:
  * `` -> ...1
  New names:
  * `` -> ...1
  * `` -> ...2
  New names:
  * `` -> ...1
  * `` -> ...2
  New names:
  * `` -> ...1
  * `` -> ...2
  Warning in sqrt(as.matrix(Cover[, 1:nbeta]) %*% beta.cov %*% t(as.matrix(Cover[, :
    NaNs produced
  Warning in cor(N.Animals, Block.Area) : the standard deviation is zero
  Warning in cor(N.Animals, Block.Area) : the standard deviation is zero
  Warning in cor(N.Animals, Block.Area) : the standard deviation is zero
  Warning in cor(N.Animals, Block.Area) : the standard deviation is zero
  --- finished re-building ‘MoosePopR-SightabilityPopR-Demo.Rmd’
  
  --- re-building ‘RatioEstimator.pdf.asis’ using asis
  --- finished re-building ‘RatioEstimator.pdf.asis’
  
  --- re-building ‘SightabilityModel.Rnw’ using Sweave
  Error: processing vignette 'SightabilityModel.Rnw' failed with diagnostics:
  Running ‘texi2dvi’ on ‘SightabilityModel.tex’ failed.
  LaTeX errors:
  ! Undefined control sequence.
  <recently read> \Hy@colorlink
                                
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  \close@pdflink ->\Hy@endcolorlink
                                    \Hy@VerboseLinkStop \pdfendlink
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  <recently read> \Hy@colorlink
                                
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  \close@pdflink ->\Hy@endcolorlink
                                    \Hy@VerboseLinkStop \pdfendlink
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  <recently read> \Hy@colorlink
                                
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  \close@pdflink ->\Hy@endcolorlink
                                    \Hy@VerboseLinkStop \pdfendlink
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  <recently read> \Hy@colorlink
                                
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  \close@pdflink ->\Hy@endcolorlink
                                    \Hy@VerboseLinkStop \pdfendlink
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  <recently read> \Hy@colorlink
                                
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  \close@pdflink ->\Hy@endcolorlink
                                    \Hy@VerboseLinkStop \pdfendlink
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  <recently read> \Hy@colorlink
                                
  l.79 \begin{document}
                       
  ! Undefined control sequence.
  \close@pdflink ->\Hy@endcolorlink
                                    \Hy@VerboseLinkStop \pdfendlink
  l.79 \begin{document}
                       
  --- failed re-building 'SightabilityModel.Rnw'
  
  SUMMARY: processing the following file failed:
    ‘SightabilityModel.Rnw’
  
  Error: Vignette re-building failed.
  Execution halted
  
• checking PDF version of manual ... OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 WARNING