Package: jarbes Check: re-building of vignette outputs New result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘bmeta.Rmd’ using rmarkdown Quitting from lines 46-47 [unnamed-chunk-3] (bmeta.Rmd) Error: processing vignette 'bmeta.Rmd' failed with diagnostics: non-numeric argument to mathematical function --- failed re-building ‘bmeta.Rmd’ --- re-building ‘hmr.Rmd’ using rmarkdown Quitting from lines 614-615 [unnamed-chunk-6] (hmr.Rmd) Error: processing vignette 'hmr.Rmd' failed with diagnostics: non-numeric argument to mathematical function --- failed re-building ‘hmr.Rmd’ SUMMARY: processing the following files failed: ‘bmeta.Rmd’ ‘hmr.Rmd’ Error: Vignette re-building failed. Execution halted Package: MBNMAdose Check: re-building of vignette outputs New result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘consistencychecking-3.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/consistencychecking-3_files/figure-html/unnamed-chunk-3-1.png 1344x960 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 26216 bytes Input file size = 27110 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21495 zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 21492 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 = 20608 zc = 9 zm = 8 zs = 1 f = 5 IDAT size = 20421 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 = 20421 Output IDAT size = 20421 bytes (5795 bytes decrease) Output file size = 20499 bytes (6611 bytes = 24.39% decrease) --- finished re-building ‘consistencychecking-3.Rmd’ --- re-building ‘dataexploration-1.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/dataexploration-1_files/figure-html/unnamed-chunk-2-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 218046 bytes Input file size = 218436 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 160681 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 = 160681 Output IDAT size = 160681 bytes (57365 bytes decrease) Output file size = 160759 bytes (57677 bytes = 26.40% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/dataexploration-1_files/figure-html/unnamed-chunk-4-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 144160 bytes Input file size = 144442 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 108770 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 = 108770 Output IDAT size = 108770 bytes (35390 bytes decrease) Output file size = 108848 bytes (35594 bytes = 24.64% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/dataexploration-1_files/figure-html/unnamed-chunk-5-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 43024 bytes Input file size = 43162 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 34497 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 = 34497 Output IDAT size = 34497 bytes (8527 bytes decrease) Output file size = 34575 bytes (8587 bytes = 19.89% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/dataexploration-1_files/figure-html/unnamed-chunk-6-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 34591 bytes Input file size = 34717 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 28108 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 = 28108 Output IDAT size = 28108 bytes (6483 bytes decrease) Output file size = 28186 bytes (6531 bytes = 18.81% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/dataexploration-1_files/figure-html/unnamed-chunk-7-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 157316 bytes Input file size = 157622 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 120267 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 = 120267 Output IDAT size = 120267 bytes (37049 bytes decrease) Output file size = 120345 bytes (37277 bytes = 23.65% decrease) Quitting from lines 198-202 [unnamed-chunk-9] (dataexploration-1.Rmd) Error: processing vignette 'dataexploration-1.Rmd' failed with diagnostics: non-numeric argument to mathematical function --- failed re-building ‘dataexploration-1.Rmd’ --- re-building ‘mbnmadose-overview.Rmd’ using rmarkdown --- finished re-building ‘mbnmadose-overview.Rmd’ --- re-building ‘metaregression-6.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/metaregression-6_files/figure-html/unnamed-chunk-7-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 73743 bytes Input file size = 73929 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 68129 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 = 66706 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 = 66706 Output IDAT size = 66706 bytes (7037 bytes decrease) Output file size = 66784 bytes (7145 bytes = 9.66% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/metaregression-6_files/figure-html/unnamed-chunk-8-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 84644 bytes Input file size = 84842 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 73461 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 = 73461 Output IDAT size = 73461 bytes (11183 bytes decrease) Output file size = 73539 bytes (11303 bytes = 13.32% decrease) --- finished re-building ‘metaregression-6.Rmd’ --- re-building ‘nma_in_mbnmadose.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/nma_in_mbnmadose_files/figure-html/unnamed-chunk-3-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16137 bytes Input file size = 16227 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 13294 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 = 13294 Output IDAT size = 13294 bytes (2843 bytes decrease) Output file size = 13372 bytes (2855 bytes = 17.59% decrease) Quitting from lines 74-75 [unnamed-chunk-4] (nma_in_mbnmadose.Rmd) Error: processing vignette 'nma_in_mbnmadose.Rmd' failed with diagnostics: non-numeric argument to mathematical function --- failed re-building ‘nma_in_mbnmadose.Rmd’ --- re-building ‘outputs-4.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/outputs-4_files/figure-html/unnamed-chunk-6-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 61331 bytes Input file size = 61493 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 56419 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 = 55368 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 = 55368 Output IDAT size = 55368 bytes (5963 bytes decrease) Output file size = 55446 bytes (6047 bytes = 9.83% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/outputs-4_files/figure-html/unnamed-chunk-8-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 65662 bytes Input file size = 65836 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 56941 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 = 56941 Output IDAT size = 56941 bytes (8721 bytes decrease) Output file size = 57019 bytes (8817 bytes = 13.39% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/outputs-4_files/figure-html/unnamed-chunk-8-2.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 56297 bytes Input file size = 56447 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 51015 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 = 51015 Output IDAT size = 51015 bytes (5282 bytes decrease) Output file size = 51093 bytes (5354 bytes = 9.49% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/outputs-4_files/figure-html/unnamed-chunk-9-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 117928 bytes Input file size = 118174 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 97476 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 = 97476 Output IDAT size = 97476 bytes (20452 bytes decrease) Output file size = 97554 bytes (20620 bytes = 17.45% decrease) --- finished re-building ‘outputs-4.Rmd’ --- re-building ‘predictions-5.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/predictions-5_files/figure-html/unnamed-chunk-6-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 99918 bytes Input file size = 100140 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 84737 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 = 84737 Output IDAT size = 84737 bytes (15181 bytes decrease) Output file size = 84815 bytes (15325 bytes = 15.30% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/predictions-5_files/figure-html/unnamed-chunk-7-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 127782 bytes Input file size = 128040 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 103206 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 = 103206 Output IDAT size = 103206 bytes (24576 bytes decrease) Output file size = 103284 bytes (24756 bytes = 19.33% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/predictions-5_files/figure-html/unnamed-chunk-8-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 46081 bytes Input file size = 46219 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 = 42235 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 = 42235 Output IDAT size = 42235 bytes (3846 bytes decrease) Output file size = 42313 bytes (3906 bytes = 8.45% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/predictions-5_files/figure-html/unnamed-chunk-9-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 129057 bytes Input file size = 129315 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 99255 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 = 99255 Output IDAT size = 99255 bytes (29802 bytes decrease) Output file size = 99333 bytes (29982 bytes = 23.19% decrease) --- finished re-building ‘predictions-5.Rmd’ --- re-building ‘runmbnmadose-2.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/runmbnmadose-2_files/figure-html/unnamed-chunk-13-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 101206 bytes Input file size = 101428 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 78412 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 = 78412 Output IDAT size = 78412 bytes (22794 bytes decrease) Output file size = 78490 bytes (22938 bytes = 22.62% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/runmbnmadose-2_files/figure-html/unnamed-chunk-14-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 33742 bytes Input file size = 33868 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 26932 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 = 26932 Output IDAT size = 26932 bytes (6810 bytes decrease) Output file size = 27010 bytes (6858 bytes = 20.25% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/runmbnmadose-2_files/figure-html/unnamed-chunk-15-1.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 34220 bytes Input file size = 34346 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 28128 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 = 28128 Output IDAT size = 28128 bytes (6092 bytes decrease) Output file size = 28206 bytes (6140 bytes = 17.88% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAdose.Rcheck/vign_test/MBNMAdose/vignettes/runmbnmadose-2_files/figure-html/unnamed-chunk-15-2.png 1344x960 pixels, 3x8 bits/pixel, RGB Input IDAT size = 31005 bytes Input file size = 31119 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25151 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 = 25151 Output IDAT size = 25151 bytes (5854 bytes decrease) Output file size = 25229 bytes (5890 bytes = 18.93% decrease) Quitting from lines 721-722 [unnamed-chunk-16] (runmbnmadose-2.Rmd) Error: processing vignette 'runmbnmadose-2.Rmd' failed with diagnostics: non-numeric argument to mathematical function --- failed re-building ‘runmbnmadose-2.Rmd’ SUMMARY: processing the following files failed: ‘dataexploration-1.Rmd’ ‘nma_in_mbnmadose.Rmd’ ‘runmbnmadose-2.Rmd’ Error: Vignette re-building failed. Execution halted Package: MBNMAtime Check: re-building of vignette outputs New result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘consistencychecking-3.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/consistencychecking-3_files/figure-html/unnamed-chunk-8-1.png 672x240 pixels, 3x8 bits/pixel, RGB Input IDAT size = 19052 bytes Input file size = 19154 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14912 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 = 14912 Output IDAT size = 14912 bytes (4140 bytes decrease) Output file size = 14990 bytes (4164 bytes = 21.74% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/consistencychecking-3_files/figure-html/unnamed-chunk-8-2.png 672x240 pixels, 3x8 bits/pixel, RGB Input IDAT size = 33676 bytes Input file size = 33802 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 26019 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 = 26019 Output IDAT size = 26019 bytes (7657 bytes decrease) Output file size = 26097 bytes (7705 bytes = 22.79% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/consistencychecking-3_files/figure-html/unnamed-chunk-11-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 31267 bytes Input file size = 31381 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25404 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 = 25404 Output IDAT size = 25404 bytes (5863 bytes decrease) Output file size = 25482 bytes (5899 bytes = 18.80% decrease) --- finished re-building ‘consistencychecking-3.Rmd’ --- re-building ‘dataexploration-1.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/dataexploration-1_files/figure-html/unnamed-chunk-1-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 19072 bytes Input file size = 19174 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16320 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 = 16320 Output IDAT size = 16320 bytes (2752 bytes decrease) Output file size = 16398 bytes (2776 bytes = 14.48% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/dataexploration-1_files/figure-html/unnamed-chunk-3-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 119981 bytes Input file size = 120227 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 88771 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 = 88771 Output IDAT size = 88771 bytes (31210 bytes decrease) Output file size = 88849 bytes (31378 bytes = 26.10% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/dataexploration-1_files/figure-html/unnamed-chunk-5-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 25739 bytes Input file size = 25853 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 19919 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 = 19919 Output IDAT size = 19919 bytes (5820 bytes decrease) Output file size = 19997 bytes (5856 bytes = 22.65% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/dataexploration-1_files/figure-html/unnamed-chunk-7-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 131032 bytes Input file size = 131290 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 94428 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 = 94428 Output IDAT size = 94428 bytes (36604 bytes decrease) Output file size = 94506 bytes (36784 bytes = 28.02% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/dataexploration-1_files/figure-html/pain.time-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 79747 bytes Input file size = 79933 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 57953 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 = 57953 Output IDAT size = 57953 bytes (21794 bytes decrease) Output file size = 58031 bytes (21902 bytes = 27.40% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/dataexploration-1_files/figure-html/obese.time-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 64122 bytes Input file size = 64284 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 45061 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 = 45061 Output IDAT size = 45061 bytes (19061 bytes decrease) Output file size = 45139 bytes (19145 bytes = 29.78% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/dataexploration-1_files/figure-html/pain.binplot-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 88635 bytes Input file size = 88833 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 65920 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 = 65920 Output IDAT size = 65920 bytes (22715 bytes decrease) Output file size = 65998 bytes (22835 bytes = 25.71% decrease) --- finished re-building ‘dataexploration-1.Rmd’ --- re-building ‘mbnmatime-overview.Rmd’ using rmarkdown --- finished re-building ‘mbnmatime-overview.Rmd’ --- re-building ‘outputs-4.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/outputs-4_files/figure-html/unnamed-chunk-5-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 91750 bytes Input file size = 91960 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 66662 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 = 66662 Output IDAT size = 66662 bytes (25088 bytes decrease) Output file size = 66740 bytes (25220 bytes = 27.42% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/outputs-4_files/figure-html/unnamed-chunk-7-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 21263 bytes Input file size = 21365 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17778 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 = 17778 Output IDAT size = 17778 bytes (3485 bytes decrease) Output file size = 17856 bytes (3509 bytes = 16.42% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/outputs-4_files/figure-html/unnamed-chunk-12-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 57969 bytes Input file size = 58131 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 41574 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 = 41574 Output IDAT size = 41574 bytes (16395 bytes decrease) Output file size = 41652 bytes (16479 bytes = 28.35% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/outputs-4_files/figure-html/unnamed-chunk-13-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 81714 bytes Input file size = 81900 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 62010 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 = 62010 Output IDAT size = 62010 bytes (19704 bytes decrease) Output file size = 62088 bytes (19812 bytes = 24.19% decrease) --- finished re-building ‘outputs-4.Rmd’ --- re-building ‘predictions-5.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/predictions-5_files/figure-html/unnamed-chunk-5-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 67053 bytes Input file size = 67227 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 53215 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 = 53215 Output IDAT size = 53215 bytes (13838 bytes decrease) Output file size = 53293 bytes (13934 bytes = 20.73% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/predictions-5_files/figure-html/unnamed-chunk-7-1.png 672x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 31464 bytes Input file size = 31578 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 24256 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 = 24256 Output IDAT size = 24256 bytes (7208 bytes decrease) Output file size = 24334 bytes (7244 bytes = 22.94% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/predictions-5_files/figure-html/unnamed-chunk-8-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 75226 bytes Input file size = 75412 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 58151 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 = 58151 Output IDAT size = 58151 bytes (17075 bytes decrease) Output file size = 58229 bytes (17183 bytes = 22.79% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/MBNMAtime.Rcheck/vign_test/MBNMAtime/vignettes/predictions-5_files/figure-html/unnamed-chunk-9-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 55375 bytes Input file size = 55525 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 41604 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 = 41604 Output IDAT size = 41604 bytes (13771 bytes decrease) Output file size = 41682 bytes (13843 bytes = 24.93% decrease) --- finished re-building ‘predictions-5.Rmd’ --- re-building ‘runmbnmatime-2.Rmd’ using rmarkdown Quitting from lines 122-123 [unnamed-chunk-3] (runmbnmatime-2.Rmd) Error: processing vignette 'runmbnmatime-2.Rmd' failed with diagnostics: non-numeric argument to mathematical function --- failed re-building ‘runmbnmatime-2.Rmd’ SUMMARY: processing the following file failed: ‘runmbnmatime-2.Rmd’ Error: Vignette re-building failed. Execution halted Package: simmr Check: tests New result: ERROR Running ‘testthat.R’ [58s/58s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(simmr) Loading required package: R2jags Loading required package: rjags Loading required package: coda Linked to JAGS 4.3.2 Loaded modules: basemod,bugs Attaching package: 'R2jags' The following object is masked from 'package:coda': traceplot Loading required package: ggplot2 > library(vdiffr) > > co <- function(expr) capture.output(expr, file = "NUL") > > test_check("simmr") [ FAIL 1 | WARN 0 | SKIP 4 | PASS 256 ] ══ Skipped tests (4) ═══════════════════════════════════════════════════════════ • On CRAN (4): 'test_simmr_mcmc_full.R:27:3', 'test_simmr_mcmc_full.R:52:3', 'test_simmr_mcmc_full.R:75:3', 'test_simmr_mcmc_full.R:159:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-simmr_ffvb.R:86:3'): simmr_ffvb_compare ──────────────────────── Error in `eval(code, test_env)`: Assertion on 'diff_sig < 0.01' failed: Must be TRUE. Backtrace: ▆ 1. └─checkmate::assert_true(diff_sig < 0.01) at test-simmr_ffvb.R:86:3 2. └─checkmate::makeAssertion(x, res, .var.name, add) 3. └─checkmate:::mstop(...) [ FAIL 1 | WARN 0 | SKIP 4 | PASS 256 ] Error: Test failures Execution halted