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

Quitting from lines 27-37 [load package] (cleaning_coral.Rmd)
Error: processing vignette 'cleaning_coral.Rmd' failed with diagnostics:
there is no package called 'shiny'
--- failed re-building ‘cleaning_coral.Rmd’

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

Quitting from lines 35-46 [load package] (cleaning_cropping_coral.Rmd)
Error: processing vignette 'cleaning_cropping_coral.Rmd' failed with diagnostics:
there is no package called 'shiny'
--- failed re-building ‘cleaning_cropping_coral.Rmd’

--- re-building ‘cropping.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized data-1.png
288x288 pixels, 8 bits/pixel, 255 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 7114 bytes
Input file size = 7969 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 6370
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 6288
  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 = 6288

Output IDAT size = 6288 bytes (826 bytes decrease)
Output file size = 6366 bytes (1603 bytes = 20.12% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized data-2.png
288x288 pixels, 8 bits/pixel, 255 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 6915 bytes
Input file size = 7770 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 6206
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 6145
  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 = 6145

Output IDAT size = 6145 bytes (770 bytes decrease)
Output file size = 6223 bytes (1547 bytes = 19.91% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized data-3.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 7101 bytes
Input file size = 7959 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 6366
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 6280
  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 = 6280

Output IDAT size = 6280 bytes (821 bytes decrease)
Output file size = 6358 bytes (1601 bytes = 20.12% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized data-4.png
288x288 pixels, 8 bits/pixel, 254 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 6904 bytes
Input file size = 7756 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 6236
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 6172
  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 = 6172

Output IDAT size = 6172 bytes (732 bytes decrease)
Output file size = 6250 bytes (1506 bytes = 19.42% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15723 bytes
Input file size = 15813 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12279
  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 = 12279

Output IDAT size = 12279 bytes (3444 bytes decrease)
Output file size = 12357 bytes (3456 bytes = 21.86% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop-2.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15985 bytes
Input file size = 16075 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12530
  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 = 12530

Output IDAT size = 12530 bytes (3455 bytes decrease)
Output file size = 12608 bytes (3467 bytes = 21.57% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop-3.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 16109 bytes
Input file size = 16199 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12706
  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 = 12706

Output IDAT size = 12706 bytes (3403 bytes decrease)
Output file size = 12784 bytes (3415 bytes = 21.08% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop-4.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15870 bytes
Input file size = 15960 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12324
  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 = 12324

Output IDAT size = 12324 bytes (3546 bytes decrease)
Output file size = 12402 bytes (3558 bytes = 22.29% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop with dimensions-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15713 bytes
Input file size = 15803 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12284
  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 = 12284

Output IDAT size = 12284 bytes (3429 bytes decrease)
Output file size = 12362 bytes (3441 bytes = 21.77% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop with dimensions-2.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15928 bytes
Input file size = 16018 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12520
  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 = 12520

Output IDAT size = 12520 bytes (3408 bytes decrease)
Output file size = 12598 bytes (3420 bytes = 21.35% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop with dimensions-3.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 16042 bytes
Input file size = 16132 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12648
  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 = 12648

Output IDAT size = 12648 bytes (3394 bytes decrease)
Output file size = 12726 bytes (3406 bytes = 21.11% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop with dimensions-4.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15884 bytes
Input file size = 15974 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12343
  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 = 12343

Output IDAT size = 12343 bytes (3541 bytes decrease)
Output file size = 12421 bytes (3553 bytes = 22.24% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/visualize soft coral-1.png
288x288 pixels, 8 bits/pixel, 255 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 7419 bytes
Input file size = 8274 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 6710
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 6655
  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 = 6655

Output IDAT size = 6655 bytes (764 bytes decrease)
Output file size = 6733 bytes (1541 bytes = 18.62% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/visualize soft coral-2.png
288x288 pixels, 8 bits/pixel, 255 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 7362 bytes
Input file size = 8217 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 6640
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 6580
  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 = 6580

Output IDAT size = 6580 bytes (782 bytes decrease)
Output file size = 6658 bytes (1559 bytes = 18.97% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/visualize soft coral-3.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 7691 bytes
Input file size = 8549 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 6975
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 6919
  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 = 6919

Output IDAT size = 6919 bytes (772 bytes decrease)
Output file size = 6997 bytes (1552 bytes = 18.15% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/visualize soft coral-4.png
288x288 pixels, 8 bits/pixel, 255 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 7846 bytes
Input file size = 8701 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 7090
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 7029
  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 = 7029

Output IDAT size = 7029 bytes (817 bytes decrease)
Output file size = 7107 bytes (1594 bytes = 18.32% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop soft corals-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 16288 bytes
Input file size = 16378 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12728
  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 = 12728

Output IDAT size = 12728 bytes (3560 bytes decrease)
Output file size = 12806 bytes (3572 bytes = 21.81% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop soft corals-2.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 17504 bytes
Input file size = 17606 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 13482
  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 = 13482

Output IDAT size = 13482 bytes (4022 bytes decrease)
Output file size = 13560 bytes (4046 bytes = 22.98% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop soft corals-3.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 17398 bytes
Input file size = 17500 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 13611
  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 = 13611

Output IDAT size = 13611 bytes (3787 bytes decrease)
Output file size = 13689 bytes (3811 bytes = 21.78% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/quadcleanR.Rcheck/vign_test/quadcleanR/vignettes/cropping_files/figure-html/randomized crop soft corals-4.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 15837 bytes
Input file size = 15927 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12412
  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 = 12412

Output IDAT size = 12412 bytes (3425 bytes decrease)
Output file size = 12490 bytes (3437 bytes = 21.58% decrease)

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

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

SUMMARY: processing the following files failed:
  ‘cleaning_coral.Rmd’ ‘cleaning_cropping_coral.Rmd’

Error: Vignette re-building failed.
Execution halted