Error(s) in re-building vignettes:
  ...
--- re-building ‘gc01_gcplyr.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc01_gcplyr_files/figure-html/unnamed-chunk-1-1.png
288x288 pixels, 8 bits/pixel, 252 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 9823 bytes
Input file size = 10681 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 9517
  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 = 9517

Output IDAT size = 9517 bytes (306 bytes decrease)
Output file size = 9595 bytes (1086 bytes = 10.17% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc01_gcplyr_files/figure-html/unnamed-chunk-1-2.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 10529 bytes
Input file size = 11399 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 10146
  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 = 10146

Output IDAT size = 10146 bytes (383 bytes decrease)
Output file size = 10224 bytes (1175 bytes = 10.31% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc01_gcplyr_files/figure-html/unnamed-chunk-1-3.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 11189 bytes
Input file size = 12059 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 10820
  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 = 10820

Output IDAT size = 10820 bytes (369 bytes decrease)
Output file size = 10898 bytes (1161 bytes = 9.63% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc01_gcplyr_files/figure-html/unnamed-chunk-1-4.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 10804 bytes
Input file size = 11674 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 10442
  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 = 10442

Output IDAT size = 10442 bytes (362 bytes decrease)
Output file size = 10520 bytes (1154 bytes = 9.89% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc01_gcplyr_files/figure-html/unnamed-chunk-1-5.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 11232 bytes
Input file size = 12102 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 10880
  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 = 10880

Output IDAT size = 10880 bytes (352 bytes decrease)
Output file size = 10958 bytes (1144 bytes = 9.45% decrease)

--- finished re-building ‘gc01_gcplyr.Rmd’

--- re-building ‘gc02_import_reshape.Rmd’ using rmarkdown
--- finished re-building ‘gc02_import_reshape.Rmd’

--- re-building ‘gc03_incorporate_designs.Rmd’ using rmarkdown
--- finished re-building ‘gc03_incorporate_designs.Rmd’

--- re-building ‘gc04_preprocess_plot.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc04_preprocess_plot_files/figure-html/unnamed-chunk-5-1.png
288x288 pixels, 8 bits/pixel, 252 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 9823 bytes
Input file size = 10681 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 9517
  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 = 9517

Output IDAT size = 9517 bytes (306 bytes decrease)
Output file size = 9595 bytes (1086 bytes = 10.17% decrease)

--- finished re-building ‘gc04_preprocess_plot.Rmd’

--- re-building ‘gc05_process.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc05_process_files/figure-html/unnamed-chunk-3-1.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 9447 bytes
Input file size = 10317 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 8966
  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 = 8966

Output IDAT size = 8966 bytes (481 bytes decrease)
Output file size = 9044 bytes (1273 bytes = 12.34% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc05_process_files/figure-html/unnamed-chunk-5-1.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 9787 bytes
Input file size = 10657 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 9281
  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 = 9281

Output IDAT size = 9281 bytes (506 bytes decrease)
Output file size = 9359 bytes (1298 bytes = 12.18% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc05_process_files/figure-html/unnamed-chunk-6-1.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 10471 bytes
Input file size = 11341 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 10000
  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 = 10000

Output IDAT size = 10000 bytes (471 bytes decrease)
Output file size = 10078 bytes (1263 bytes = 11.14% decrease)

--- finished re-building ‘gc05_process.Rmd’

--- re-building ‘gc06_analyze.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc06_analyze_files/figure-html/unnamed-chunk-3-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 24321 bytes
Input file size = 24423 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 18370
  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 = 18370

Output IDAT size = 18370 bytes (5951 bytes decrease)
Output file size = 18448 bytes (5975 bytes = 24.46% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc06_analyze_files/figure-html/unnamed-chunk-4-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 24185 bytes
Input file size = 24287 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 18377
  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 = 18377

Output IDAT size = 18377 bytes (5808 bytes decrease)
Output file size = 18455 bytes (5832 bytes = 24.01% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc06_analyze_files/figure-html/unnamed-chunk-5-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 17210 bytes
Input file size = 17312 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 13615
  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 = 13615

Output IDAT size = 13615 bytes (3595 bytes decrease)
Output file size = 13693 bytes (3619 bytes = 20.90% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc06_analyze_files/figure-html/unnamed-chunk-6-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 18018 bytes
Input file size = 18120 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 13651
  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 = 13651

Output IDAT size = 13651 bytes (4367 bytes decrease)
Output file size = 13729 bytes (4391 bytes = 24.23% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc06_analyze_files/figure-html/unnamed-chunk-8-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 18102 bytes
Input file size = 18204 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 13712
  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 = 13712

Output IDAT size = 13712 bytes (4390 bytes decrease)
Output file size = 13790 bytes (4414 bytes = 24.25% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc06_analyze_files/figure-html/unnamed-chunk-10-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 18925 bytes
Input file size = 19027 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 14146
  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 = 14146

Output IDAT size = 14146 bytes (4779 bytes decrease)
Output file size = 14224 bytes (4803 bytes = 25.24% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc06_analyze_files/figure-html/unnamed-chunk-11-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 17563 bytes
Input file size = 17665 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 13828
  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 = 13828

Output IDAT size = 13828 bytes (3735 bytes decrease)
Output file size = 13906 bytes (3759 bytes = 21.28% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc06_analyze_files/figure-html/unnamed-chunk-12-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 19826 bytes
Input file size = 19928 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 14746
  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 = 14746

Output IDAT size = 14746 bytes (5080 bytes decrease)
Output file size = 14824 bytes (5104 bytes = 25.61% decrease)


Quitting from lines 407-419 [unnamed-chunk-13] (gc06_analyze.Rmd)
Error: processing vignette 'gc06_analyze.Rmd' failed with diagnostics:
ℹ In argument: `centr_x = centroid_x(x = Time, y = Measurements)`.
ℹ In group 1: `Bacteria_strain = "Strain 1"`, `Phage = "No Phage"`, `Well =
  A1`.
Caused by error:
! Package "sf" must be installed to calculate centroids
--- failed re-building ‘gc06_analyze.Rmd’

--- re-building ‘gc07_noise.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-1-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 26270 bytes
Input file size = 26384 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 19522
  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 = 19522

Output IDAT size = 19522 bytes (6748 bytes decrease)
Output file size = 19600 bytes (6784 bytes = 25.71% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-2-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 29356 bytes
Input file size = 29470 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 20240
  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 = 20240

Output IDAT size = 20240 bytes (9116 bytes decrease)
Output file size = 20318 bytes (9152 bytes = 31.06% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-2-2.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 23859 bytes
Input file size = 23961 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 16764
  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 = 16764

Output IDAT size = 16764 bytes (7095 bytes decrease)
Output file size = 16842 bytes (7119 bytes = 29.71% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-3-1.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 9627 bytes
Input file size = 10497 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 9169
  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 = 9169

Output IDAT size = 9169 bytes (458 bytes decrease)
Output file size = 9247 bytes (1250 bytes = 11.91% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-3-2.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 8690 bytes
Input file size = 9560 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 8196
  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 = 8196

Output IDAT size = 8196 bytes (494 bytes decrease)
Output file size = 8274 bytes (1286 bytes = 13.45% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-4-1.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 9074 bytes
Input file size = 9944 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 8646
  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 = 8646

Output IDAT size = 8646 bytes (428 bytes decrease)
Output file size = 8724 bytes (1220 bytes = 12.27% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-4-2.png
288x288 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 8484 bytes
Input file size = 9354 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 7960
  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 = 7960

Output IDAT size = 7960 bytes (524 bytes decrease)
Output file size = 8038 bytes (1316 bytes = 14.07% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-6-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 22367 bytes
Input file size = 22469 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 17152
  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 = 17152

Output IDAT size = 17152 bytes (5215 bytes decrease)
Output file size = 17230 bytes (5239 bytes = 23.32% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-6-2.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 22112 bytes
Input file size = 22214 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 18610
  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 = 18610

Output IDAT size = 18610 bytes (3502 bytes decrease)
Output file size = 18688 bytes (3526 bytes = 15.87% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-7-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 19619 bytes
Input file size = 19721 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 16686
  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 = 16686

Output IDAT size = 16686 bytes (2933 bytes decrease)
Output file size = 16764 bytes (2957 bytes = 14.99% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-8-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 19456 bytes
Input file size = 19558 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 16533
  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 = 16533

Output IDAT size = 16533 bytes (2923 bytes decrease)
Output file size = 16611 bytes (2947 bytes = 15.07% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc07_noise_files/figure-html/unnamed-chunk-9-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 24594 bytes
Input file size = 24708 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 20186
  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 = 20186

Output IDAT size = 20186 bytes (4408 bytes decrease)
Output file size = 20264 bytes (4444 bytes = 17.99% decrease)


Quitting from lines 358-366 [unnamed-chunk-10] (gc07_noise.Rmd)
Error: processing vignette 'gc07_noise.Rmd' failed with diagnostics:
ℹ In argument: `train_smooth_data(...)`.
ℹ In group 1: `Bacteria_strain = "Strain 1"`, `Phage = "No Phage"`, `Well =
  A1`.
Caused by error:
! Package "caret" must be installed to use train_smooth_data
--- failed re-building ‘gc07_noise.Rmd’

--- re-building ‘gc08_conclusion.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc08_conclusion_files/figure-html/unnamed-chunk-2-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 27664 bytes
Input file size = 27778 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 26532
  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		IDAT size = 25063
  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 = 5		IDAT size = 25063

Output IDAT size = 25063 bytes (2601 bytes decrease)
Output file size = 25141 bytes (2637 bytes = 9.49% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc08_conclusion_files/figure-html/unnamed-chunk-3-1.png
288x288 pixels, 8 bits/pixel, 252 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 3840 bytes
Input file size = 4686 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 3481
  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 = 3481

Output IDAT size = 3481 bytes (359 bytes decrease)
Output file size = 3559 bytes (1127 bytes = 24.05% decrease)

** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gcplyr.Rcheck/vign_test/gcplyr/vignettes/gc08_conclusion_files/figure-html/unnamed-chunk-6-1.png
288x288 pixels, 8 bits/pixel, 251 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 4481 bytes
Input file size = 5324 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 3965
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 3965
  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 = 3965

Output IDAT size = 3965 bytes (516 bytes decrease)
Output file size = 4043 bytes (1281 bytes = 24.06% decrease)

--- finished re-building ‘gc08_conclusion.Rmd’

--- re-building ‘gc09_multiple_plates.Rmd’ using rmarkdown
--- finished re-building ‘gc09_multiple_plates.Rmd’

--- re-building ‘gc10_using_make_design.Rmd’ using rmarkdown
--- finished re-building ‘gc10_using_make_design.Rmd’

SUMMARY: processing the following files failed:
  ‘gc06_analyze.Rmd’ ‘gc07_noise.Rmd’

Error: Vignette re-building failed.
Execution halted