Error(s) in re-building vignettes:
--- re-building 'A_Haplin_intro_installation.Rmd' using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  The vignette engine knitr::rmarkdown is not available, because the rmarkdown package is not installed. Please install it.
--- finished re-building 'A_Haplin_intro_installation.Rmd'

--- re-building 'B_Reading_data.Rmd' using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  The vignette engine knitr::rmarkdown is not available, because the rmarkdown package is not installed. Please install it.
Read 6 items
Read 1494 items
Read 0 items
Read 864 items
Read 1433376 items
Read 0 items
Read 6 items
Read 1494 items
Read 0 items
Read 864 items
Read 1433376 items
Read 0 items
--- finished re-building 'B_Reading_data.Rmd'

--- re-building 'C_Running_Haplin.Rmd' using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  The vignette engine knitr::rmarkdown is not available, because the rmarkdown package is not installed. Please install it.
Read 6 items
Read 1494 items
Read 0 items
Read 8 items
Read 9112 items
Read 0 items
Read 864 items
Read 1433376 items
Read 0 items
Quitting from lines 141-142 (C_Running_Haplin.Rmd) 
Error: processing vignette 'C_Running_Haplin.Rmd' failed with diagnostics:
ggplot2 cannot be loaded!
--- failed re-building 'C_Running_Haplin.Rmd'

--- re-building 'D_Running_Haplin_on_cluster.Rmd' using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  The vignette engine knitr::rmarkdown is not available, because the rmarkdown package is not installed. Please install it.
--- finished re-building 'D_Running_Haplin_on_cluster.Rmd'

--- re-building 'hapRelEff.Rmd' using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  The vignette engine knitr::rmarkdown is not available, because the rmarkdown package is not installed. Please install it.
--- finished re-building 'hapRelEff.Rmd'

SUMMARY: processing the following file failed:
  'C_Running_Haplin.Rmd'

Error: Vignette re-building failed.
Execution halted