Error(s) in re-building vignettes:
  ...
--- re-building ‘bin.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ldt.Rcheck/vign_test/ldt/vignettes/bin_files/figure-html/plot-1.png
288x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 14571 bytes
Input file size = 14661 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 11548
  zc = 9  zm = 8  zs = 1  f = 0
  zc = 1  zm = 8  zs = 2  f = 0
  zc = 9  zm = 8  zs = 3  f = 0
  zc = 9  zm = 8  zs = 0  f = 5
  zc = 9  zm = 8  zs = 1  f = 5
  zc = 1  zm = 8  zs = 2  f = 5
  zc = 9  zm = 8  zs = 3  f = 5
                               
Selecting parameters:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 11548

Output IDAT size = 11548 bytes (3023 bytes decrease)
Output file size = 11626 bytes (3035 bytes = 20.70% decrease)

** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ldt.Rcheck/vign_test/ldt/vignettes/bin_files/figure-html/plot-2.png
288x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13244 bytes
Input file size = 13334 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 10675
  zc = 9  zm = 8  zs = 1  f = 0
  zc = 1  zm = 8  zs = 2  f = 0
  zc = 9  zm = 8  zs = 3  f = 0
  zc = 9  zm = 8  zs = 0  f = 5
  zc = 9  zm = 8  zs = 1  f = 5
  zc = 1  zm = 8  zs = 2  f = 5
  zc = 9  zm = 8  zs = 3  f = 5
                               
Selecting parameters:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 10675

Output IDAT size = 10675 bytes (2569 bytes decrease)
Output file size = 10753 bytes (2581 bytes = 19.36% decrease)

** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ldt.Rcheck/vign_test/ldt/vignettes/bin_files/figure-html/plot-3.png
288x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15345 bytes
Input file size = 15435 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12239
  zc = 9  zm = 8  zs = 1  f = 0
  zc = 1  zm = 8  zs = 2  f = 0
  zc = 9  zm = 8  zs = 3  f = 0
  zc = 9  zm = 8  zs = 0  f = 5
  zc = 9  zm = 8  zs = 1  f = 5
  zc = 1  zm = 8  zs = 2  f = 5
  zc = 9  zm = 8  zs = 3  f = 5
                               
Selecting parameters:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12239

Output IDAT size = 12239 bytes (3106 bytes decrease)
Output file size = 12317 bytes (3118 bytes = 20.20% decrease)

** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ldt.Rcheck/vign_test/ldt/vignettes/bin_files/figure-html/plot-4.png
288x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 13672 bytes
Input file size = 13762 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 11002
  zc = 9  zm = 8  zs = 1  f = 0
  zc = 1  zm = 8  zs = 2  f = 0
  zc = 9  zm = 8  zs = 3  f = 0
  zc = 9  zm = 8  zs = 0  f = 5
  zc = 9  zm = 8  zs = 1  f = 5
  zc = 1  zm = 8  zs = 2  f = 5
  zc = 9  zm = 8  zs = 3  f = 5
                               
Selecting parameters:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 11002

Output IDAT size = 11002 bytes (2670 bytes decrease)
Output file size = 11080 bytes (2682 bytes = 19.49% decrease)

--- finished re-building ‘bin.Rmd’

--- re-building ‘sur.Rmd’ using rmarkdown

Quitting from lines 19-21 [setup] (sur.Rmd)
Error: processing vignette 'sur.Rmd' failed with diagnostics:
there is no package called 'kableExtra'
--- failed re-building ‘sur.Rmd’

--- re-building ‘varma.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ldt.Rcheck/vign_test/ldt/vignettes/varma_files/figure-html/plot-1.png
576x480 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 18441 bytes
Input file size = 18543 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 14540
  zc = 9  zm = 8  zs = 1  f = 0
  zc = 1  zm = 8  zs = 2  f = 0
  zc = 9  zm = 8  zs = 3  f = 0
  zc = 9  zm = 8  zs = 0  f = 5
  zc = 9  zm = 8  zs = 1  f = 5
  zc = 1  zm = 8  zs = 2  f = 5
  zc = 9  zm = 8  zs = 3  f = 5
                               
Selecting parameters:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 14540

Output IDAT size = 14540 bytes (3901 bytes decrease)
Output file size = 14618 bytes (3925 bytes = 21.17% decrease)

--- finished re-building ‘varma.Rmd’

SUMMARY: processing the following file failed:
  ‘sur.Rmd’

Error: Vignette re-building failed.
Execution halted