Error(s) in re-building vignettes:
--- re-building ‘A-summarise_clinical_tables_records.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-clang/OmopSketch.Rcheck/vign_test/OmopSketch/vignettes/A-summarise_clinical_tables_records_files/figure-html/unnamed-chunk-9-1.png
1344x960 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 62454 bytes
Input file size = 63396 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 55351
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 54762
  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 = 53418
  zc = 9  zm = 8  zs = 1  f = 5		IDAT size = 52660
  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 = 52660

Output IDAT size = 52660 bytes (9794 bytes decrease)
Output file size = 52738 bytes (10658 bytes = 16.81% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/OmopSketch.Rcheck/vign_test/OmopSketch/vignettes/A-summarise_clinical_tables_records_files/figure-html/unnamed-chunk-10-1.png
1344x960 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 82753 bytes
Input file size = 83731 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 74950
  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 = 70034
  zc = 9  zm = 8  zs = 1  f = 5		IDAT size = 69173
  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 = 69173

Output IDAT size = 69173 bytes (13580 bytes decrease)
Output file size = 69251 bytes (14480 bytes = 17.29% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/OmopSketch.Rcheck/vign_test/OmopSketch/vignettes/A-summarise_clinical_tables_records_files/figure-html/unnamed-chunk-11-1.png
1344x960 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 72037 bytes
Input file size = 72991 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 64611
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 64546
  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		IDAT size = 64178
  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 = 64178

Output IDAT size = 64178 bytes (7859 bytes decrease)
Output file size = 64256 bytes (8735 bytes = 11.97% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/OmopSketch.Rcheck/vign_test/OmopSketch/vignettes/A-summarise_clinical_tables_records_files/figure-html/unnamed-chunk-13-1.png
1344x960 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 252315 bytes
Input file size = 252753 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 208164
  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 = 208164

Output IDAT size = 208164 bytes (44151 bytes decrease)
Output file size = 208242 bytes (44511 bytes = 17.61% decrease)

--- finished re-building ‘A-summarise_clinical_tables_records.Rmd’

--- re-building ‘B-summarise_concept_set_counts.Rmd’ using rmarkdown

Quitting from lines 17-26 [unnamed-chunk-1] (B-summarise_concept_set_counts.Rmd)
Error: processing vignette 'B-summarise_concept_set_counts.Rmd' failed with diagnostics:
could not find function "eunomia_is_available"
--- failed re-building ‘B-summarise_concept_set_counts.Rmd’

--- re-building ‘C-summarise_observation_period.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-clang/OmopSketch.Rcheck/vign_test/OmopSketch/vignettes/C-summarise_observation_period_files/figure-html/unnamed-chunk-7-1.png
1344x960 pixels, 8 bits/pixel, 255 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 15443 bytes
Input file size = 16310 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 11852
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 11816
  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 = 10566
  zc = 9  zm = 8  zs = 1  f = 5		IDAT size = 10475
  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 = 10475

Output IDAT size = 10475 bytes (4968 bytes decrease)
Output file size = 10553 bytes (5757 bytes = 35.30% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/OmopSketch.Rcheck/vign_test/OmopSketch/vignettes/C-summarise_observation_period_files/figure-html/unnamed-chunk-8-1.png
1344x960 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 18026 bytes
Input file size = 18908 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 14288
  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 = 11569
  zc = 9  zm = 8  zs = 1  f = 5		IDAT size = 11473
  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 = 11473

Output IDAT size = 11473 bytes (6553 bytes decrease)
Output file size = 11551 bytes (7357 bytes = 38.91% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/OmopSketch.Rcheck/vign_test/OmopSketch/vignettes/C-summarise_observation_period_files/figure-html/unnamed-chunk-8-2.png
1344x960 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 39872 bytes
Input file size = 39998 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0
  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 = 34875
  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 = 34875

Output IDAT size = 34875 bytes (4997 bytes decrease)
Output file size = 34953 bytes (5045 bytes = 12.61% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/OmopSketch.Rcheck/vign_test/OmopSketch/vignettes/C-summarise_observation_period_files/figure-html/unnamed-chunk-13-1.png
1344x960 pixels, 8 bits/pixel, 256 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 40792 bytes
Input file size = 41698 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 36089
  zc = 9  zm = 8  zs = 1  f = 0		IDAT size = 35465
  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 = 35465

Output IDAT size = 35465 bytes (5327 bytes decrease)
Output file size = 35543 bytes (6155 bytes = 14.76% decrease)

** Processing: /data/gannet/ripley/R/packages/tests-clang/OmopSketch.Rcheck/vign_test/OmopSketch/vignettes/C-summarise_observation_period_files/figure-html/unnamed-chunk-14-1.png
1344x960 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 180860 bytes
Input file size = 181202 bytes

Trying:
  zc = 9  zm = 8  zs = 0  f = 0		IDAT size = 140521
  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 = 140521

Output IDAT size = 140521 bytes (40339 bytes decrease)
Output file size = 140599 bytes (40603 bytes = 22.41% decrease)

--- finished re-building ‘C-summarise_observation_period.Rmd’

SUMMARY: processing the following file failed:
  ‘B-summarise_concept_set_counts.Rmd’

Error: Vignette re-building failed.
Execution halted