Error(s) in re-building vignettes:
  ...
--- re-building ‘HaDeX.Rmd’ using rmarkdown

Quitting from lines 265-272 [unnamed-chunk-6] (HaDeX.Rmd)
Error: processing vignette 'HaDeX.Rmd' failed with diagnostics:
ℹ In argument: `in_time_mean_1 = mean(gg_Nucb2_EDTA_0.001, na.rm =
  TRUE)`.
ℹ In group 1: `Sequence = "DELKRQEVARL"`, `Start = 96`, `End = 106`, `MaxUptake
  = 10`, `MHP = 1356.759`.
Caused by error:
! object 'gg_Nucb2_EDTA_0.001' not found
--- failed re-building ‘HaDeX.Rmd’

--- re-building ‘datafiles.Rmd’ using rmarkdown
--- finished re-building ‘datafiles.Rmd’

--- re-building ‘mass_comparison.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/HaDeX.Rcheck/vign_test/HaDeX/vignettes/mass_comparison_files/figure-html/unnamed-chunk-8-1.png
1344x960 pixels, 3x8 bits/pixel, RGB
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 35790 bytes
Input file size = 35913 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 18439
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 18357
  zc = 1  zm = 8  zs = 2  f = 0
  zc = 9  zm = 8  zs = 3  f = 0
  zc = 9  zm = 8  zs = 0  f = 5		IDAT size = 16874
  zc = 9  zm = 8  zs = 1  f = 5		IDAT size = 16707
  zc = 1  zm = 8  zs = 2  f = 5
  zc = 9  zm = 8  zs = 3  f = 5
                               
Selecting parameters:
  zc = 9  zm = 8  zs = 1  f = 5		IDAT size = 16707

Output IDAT size = 16707 bytes (19083 bytes decrease)
Output file size = 16778 bytes (19135 bytes = 53.28% decrease)

--- finished re-building ‘mass_comparison.Rmd’

--- re-building ‘transformation.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/HaDeX.Rcheck/vign_test/HaDeX/vignettes/transformation_files/figure-html/unnamed-chunk-3-1.png
1344x960 pixels, 3x8 bits/pixel, RGB
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 22126 bytes
Input file size = 22225 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 9976
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 9936
  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 = 1  f = 0		IDAT size = 9936

Output IDAT size = 9936 bytes (12190 bytes decrease)
Output file size = 10007 bytes (12218 bytes = 54.97% decrease)

** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/HaDeX.Rcheck/vign_test/HaDeX/vignettes/transformation_files/figure-html/unnamed-chunk-4-1.png
1344x960 pixels, 3x8 bits/pixel, RGB
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 17885 bytes
Input file size = 17984 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 7132
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 7107
  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 = 1  f = 0		IDAT size = 7107

Output IDAT size = 7107 bytes (10778 bytes decrease)
Output file size = 7178 bytes (10806 bytes = 60.09% decrease)

** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/HaDeX.Rcheck/vign_test/HaDeX/vignettes/transformation_files/figure-html/unnamed-chunk-5-1.png
1344x960 pixels, 3x8 bits/pixel, RGB
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 17885 bytes
Input file size = 17984 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 7132
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 7107
  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 = 1  f = 0		IDAT size = 7107

Output IDAT size = 7107 bytes (10778 bytes decrease)
Output file size = 7178 bytes (10806 bytes = 60.09% decrease)

** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/HaDeX.Rcheck/vign_test/HaDeX/vignettes/transformation_files/figure-html/unnamed-chunk-6-1.png
1344x960 pixels, 3x8 bits/pixel, RGB
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 17885 bytes
Input file size = 17984 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 7132
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 7107
  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 = 1  f = 0		IDAT size = 7107

Output IDAT size = 7107 bytes (10778 bytes decrease)
Output file size = 7178 bytes (10806 bytes = 60.09% decrease)

** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/HaDeX.Rcheck/vign_test/HaDeX/vignettes/transformation_files/figure-html/unnamed-chunk-7-1.png
1344x960 pixels, 3x8 bits/pixel, RGB
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 27195 bytes
Input file size = 27306 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 11551
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 11504
  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 = 1  f = 0		IDAT size = 11504

Output IDAT size = 11504 bytes (15691 bytes decrease)
Output file size = 11575 bytes (15731 bytes = 57.61% decrease)

--- finished re-building ‘transformation.Rmd’

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

Error: Vignette re-building failed.
Execution halted