Error(s) in re-building vignettes:
--- re-building ‘BD_shifts.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-clang/HTSSIP.Rcheck/vign_test/HTSSIP/vignettes/BD_shifts_files/figure-html/plot_wmean-1.png
672x336 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 13804 bytes
Input file size = 14674 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 12275
  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 = 12275

Output IDAT size = 12275 bytes (1529 bytes decrease)
Output file size = 12353 bytes (2321 bytes = 15.82% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/HTSSIP.Rcheck/vign_test/HTSSIP/vignettes/BD_shifts_files/figure-html/wmean_m_plot-1.png
672x336 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 35209 bytes
Input file size = 35335 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 27899
  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 = 27899

Output IDAT size = 27899 bytes (7310 bytes decrease)
Output file size = 27977 bytes (7358 bytes = 20.82% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/HTSSIP.Rcheck/vign_test/HTSSIP/vignettes/BD_shifts_files/figure-html/shift_plot-1.png
672x480 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 58702 bytes
Input file size = 58864 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 44595
  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 = 44595

Output IDAT size = 44595 bytes (14107 bytes decrease)
Output file size = 44673 bytes (14191 bytes = 24.11% decrease)

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

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

--- re-building ‘HTSSIP_sim.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-clang/HTSSIP.Rcheck/vign_test/HTSSIP/vignettes/HTSSIP_sim_files/figure-html/unnamed-chunk-12-1.png
672x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 24341 bytes
Input file size = 24443 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 19131
  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 = 19131

Output IDAT size = 19131 bytes (5210 bytes decrease)
Output file size = 19209 bytes (5234 bytes = 21.41% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/HTSSIP.Rcheck/vign_test/HTSSIP/vignettes/HTSSIP_sim_files/figure-html/unnamed-chunk-14-1.png
672x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 24466 bytes
Input file size = 24568 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 19208
  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 = 19208

Output IDAT size = 19208 bytes (5258 bytes decrease)
Output file size = 19286 bytes (5282 bytes = 21.50% decrease)

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

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

Quitting from lines 76-77 [unnamed-chunk-4] (MW_HR_SIP.Rmd)
Error: processing vignette 'MW_HR_SIP.Rmd' failed with diagnostics:
could not find function "sample_data"
--- failed re-building ‘MW_HR_SIP.Rmd’

--- re-building ‘beta_diversity_ordinations.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-clang/HTSSIP.Rcheck/vign_test/HTSSIP/vignettes/beta_diversity_ordinations_files/figure-html/unnamed-chunk-9-1.png
720x576 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 112484 bytes
Input file size = 112718 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 93546
  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 = 93546

Output IDAT size = 93546 bytes (18938 bytes decrease)
Output file size = 93624 bytes (19094 bytes = 16.94% decrease)

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

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

Quitting from lines 64-65 [unnamed-chunk-4] (heavy_SIP.Rmd)
Error: processing vignette 'heavy_SIP.Rmd' failed with diagnostics:
could not find function "sample_data"
--- failed re-building ‘heavy_SIP.Rmd’

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

Quitting from lines 96-101 [unnamed-chunk-7] (qSIP.Rmd)
Error: processing vignette 'qSIP.Rmd' failed with diagnostics:
could not find function "sample_data"
--- failed re-building ‘qSIP.Rmd’

--- re-building ‘quant_incorp.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-clang/HTSSIP.Rcheck/vign_test/HTSSIP/vignettes/quant_incorp_files/figure-html/unnamed-chunk-10-1.png
672x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 11794 bytes
Input file size = 11884 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 9761
  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 = 9761

Output IDAT size = 9761 bytes (2033 bytes decrease)
Output file size = 9839 bytes (2045 bytes = 17.21% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/HTSSIP.Rcheck/vign_test/HTSSIP/vignettes/quant_incorp_files/figure-html/unnamed-chunk-11-1.png
288x288 pixels, 8 bits/pixel, 241 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 3884 bytes
Input file size = 4697 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 3489
  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 = 3489

Output IDAT size = 3489 bytes (395 bytes decrease)
Output file size = 3567 bytes (1130 bytes = 24.06% decrease)

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

SUMMARY: processing the following files failed:
  ‘MW_HR_SIP.Rmd’ ‘heavy_SIP.Rmd’ ‘qSIP.Rmd’

Error: Vignette re-building failed.
Execution halted