Package check result: NOTE Check: CRAN incoming feasibility, Result: NOTE Maintainer: ‘Mollie Brooks ’ Found the following (possibly) invalid DOIs: DOI: 10.18637/jss.v112.i01 From: inst/CITATION Status: 404 Message: Not Found Size of tarball: 6870410 bytes Changes to worse in reverse depends: Package: qra Check: re-building of vignette outputs New result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘MeBrPlot.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/MeBrPlot_files/figure-html/y1988-1.png 768x240 pixels, 3x8 bits/pixel, RGB Input IDAT size = 39031 bytes Input file size = 39157 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 29027 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 = 29027 Output IDAT size = 29027 bytes (10004 bytes decrease) Output file size = 29105 bytes (10052 bytes = 25.67% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/MeBrPlot_files/figure-html/y1989-1.png 576x216 pixels, 3x8 bits/pixel, RGB Input IDAT size = 31337 bytes Input file size = 31451 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 22846 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 = 22846 Output IDAT size = 22846 bytes (8491 bytes decrease) Output file size = 22924 bytes (8527 bytes = 27.11% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/MeBrPlot_files/figure-html/yr88-1.png 816x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 28454 bytes Input file size = 28568 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 24054 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 = 24054 Output IDAT size = 24054 bytes (4400 bytes decrease) Output file size = 24132 bytes (4436 bytes = 15.53% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/MeBrPlot_files/figure-html/yr89-1.png 624x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 20719 bytes Input file size = 20821 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17011 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 = 17011 Output IDAT size = 17011 bytes (3708 bytes decrease) Output file size = 17089 bytes (3732 bytes = 17.92% decrease) --- finished re-building ‘MeBrPlot.Rmd’ --- re-building ‘countDists.Rmd’ using rmarkdown The magick package is required to crop "/home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/plot-gph12-1.png" but not available. ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/plot-gph12-1.png 624x264 pixels, 3x8 bits/pixel, RGB Input IDAT size = 20859 bytes Input file size = 20961 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16873 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 = 16873 Output IDAT size = 16873 bytes (3986 bytes decrease) Output file size = 16951 bytes (4010 bytes = 19.13% decrease) The magick package is required to crop "/home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/cfDBI-BB-1.png" but not available. ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/cfDBI-BB-1.png 864x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 36692 bytes Input file size = 36818 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 28398 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 = 28398 Output IDAT size = 28398 bytes (8294 bytes decrease) Output file size = 28476 bytes (8342 bytes = 22.66% decrease) The magick package is required to crop "/home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/plot-binAB-1.png" but not available. ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/plot-binAB-1.png 768x312 pixels, 3x8 bits/pixel, RGB Input IDAT size = 38104 bytes Input file size = 38230 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 30525 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 = 30525 Output IDAT size = 30525 bytes (7579 bytes decrease) Output file size = 30603 bytes (7627 bytes = 19.95% decrease) The magick package is required to crop "/home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/cfsim-1.png" but not available. ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/cfsim-1.png 672x216 pixels, 3x8 bits/pixel, RGB Input IDAT size = 38452 bytes Input file size = 38578 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 29019 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 = 29019 Output IDAT size = 29019 bytes (9433 bytes decrease) Output file size = 29097 bytes (9481 bytes = 24.58% decrease) The magick package is required to crop "/home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/cfq2-1.png" but not available. ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/cfq2-1.png 672x216 pixels, 3x8 bits/pixel, RGB Input IDAT size = 39730 bytes Input file size = 39856 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 29682 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 = 29682 Output IDAT size = 29682 bytes (10048 bytes decrease) Output file size = 29760 bytes (10096 bytes = 25.33% decrease) The magick package is required to crop "/home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/rqmales-1.png" but not available. ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/rqmales-1.png 806x297 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 22122 bytes Input file size = 23004 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20215 zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 20178 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 = 20178 Output IDAT size = 20178 bytes (1944 bytes decrease) Output file size = 20256 bytes (2748 bytes = 11.95% decrease) The magick package is required to crop "/home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/plot-poisAB-1.png" but not available. ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/plot-poisAB-1.png 768x312 pixels, 3x8 bits/pixel, RGB Input IDAT size = 40444 bytes Input file size = 40570 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 32235 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 = 32235 Output IDAT size = 32235 bytes (8209 bytes decrease) Output file size = 32313 bytes (8257 bytes = 20.35% decrease) The magick package is required to crop "/home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/wormpois-1.png" but not available. ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/countDists_files/figure-html/wormpois-1.png 768x240 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 21322 bytes Input file size = 22204 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 19878 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 = 19878 Output IDAT size = 19878 bytes (1444 bytes decrease) Output file size = 19956 bytes (2248 bytes = 10.12% decrease) --- finished re-building ‘countDists.Rmd’ --- re-building ‘timeMortality.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/plots-1.png 672x720 pixels, 3x8 bits/pixel, RGB Input IDAT size = 81023 bytes Input file size = 81209 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 55989 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 = 55989 Output IDAT size = 55989 bytes (25034 bytes decrease) Output file size = 56067 bytes (25142 bytes = 30.96% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/glmmTMB-altFits-gph1-1.png 864x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 79889 bytes Input file size = 80075 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 57222 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 = 57222 Output IDAT size = 57222 bytes (22667 bytes decrease) Output file size = 57300 bytes (22775 bytes = 28.44% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/DHARMa-1.png 336x319 pixels, 3x8 bits/pixel, RGB Input IDAT size = 33386 bytes Input file size = 33512 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 26612 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 = 26612 Output IDAT size = 26612 bytes (6774 bytes decrease) Output file size = 26690 bytes (6822 bytes = 20.36% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/DHARMa-2.png 336x319 pixels, 3x8 bits/pixel, RGB Input IDAT size = 39739 bytes Input file size = 39865 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 30566 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 = 30566 Output IDAT size = 30566 bytes (9173 bytes decrease) Output file size = 30644 bytes (9221 bytes = 23.13% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/DHARMa-3.png 336x319 pixels, 3x8 bits/pixel, RGB Input IDAT size = 43139 bytes Input file size = 43277 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 32868 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 = 32868 Output IDAT size = 32868 bytes (10271 bytes decrease) Output file size = 32946 bytes (10331 bytes = 23.87% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/residBYgp-1.png 360x342 pixels, 3x8 bits/pixel, RGB Input IDAT size = 34624 bytes Input file size = 34750 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27502 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 = 27502 Output IDAT size = 27502 bytes (7122 bytes decrease) Output file size = 27580 bytes (7170 bytes = 20.63% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/residBYgp-2.png 360x342 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 18403 bytes Input file size = 19285 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17295 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 = 17295 Output IDAT size = 17295 bytes (1108 bytes decrease) Output file size = 17373 bytes (1912 bytes = 9.91% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/residBYgp-3.png 360x342 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 18275 bytes Input file size = 19157 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17157 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 = 17157 Output IDAT size = 17157 bytes (1118 bytes decrease) Output file size = 17235 bytes (1922 bytes = 10.03% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/trtGp-1.png 480x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 21011 bytes Input file size = 21113 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16769 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 = 16769 Output IDAT size = 16769 bytes (4242 bytes decrease) Output file size = 16847 bytes (4266 bytes = 20.21% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/trtGp-2.png 480x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 18758 bytes Input file size = 18860 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 15576 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 = 15576 Output IDAT size = 15576 bytes (3182 bytes decrease) Output file size = 15654 bytes (3206 bytes = 17.00% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/overdispSim-1.png 480x408 pixels, 3x8 bits/pixel, RGB Input IDAT size = 39204 bytes Input file size = 39330 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 32077 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 = 32077 Output IDAT size = 32077 bytes (7127 bytes decrease) Output file size = 32155 bytes (7175 bytes = 18.24% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/overdispSim-2.png 480x408 pixels, 3x8 bits/pixel, RGB Input IDAT size = 17360 bytes Input file size = 17462 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14215 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 = 14215 Output IDAT size = 14215 bytes (3145 bytes decrease) Output file size = 14293 bytes (3169 bytes = 18.15% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/glmmTMB-altFits-gph-disp-1.png 864x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 51537 bytes Input file size = 51687 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 42111 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 = 42111 Output IDAT size = 42111 bytes (9426 bytes decrease) Output file size = 42189 bytes (9498 bytes = 18.38% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/only-obslevel-1.png 360x306 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16022 bytes Input file size = 16112 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12483 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 = 12483 Output IDAT size = 12483 bytes (3539 bytes decrease) Output file size = 12561 bytes (3551 bytes = 22.04% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/biObsCLL-1.png 360x342 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 16033 bytes Input file size = 16903 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 15051 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 = 15051 Output IDAT size = 15051 bytes (982 bytes decrease) Output file size = 15129 bytes (1774 bytes = 10.50% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/biObsCLL-2.png 360x342 pixels, 3x8 bits/pixel, RGB Input IDAT size = 39853 bytes Input file size = 39979 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 30296 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 = 30296 Output IDAT size = 30296 bytes (9557 bytes decrease) Output file size = 30374 bytes (9605 bytes = 24.03% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/biObsCLL-3.png 360x342 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 16848 bytes Input file size = 17730 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 15774 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 = 15774 Output IDAT size = 15774 bytes (1074 bytes decrease) Output file size = 15852 bytes (1878 bytes = 10.59% decrease) ** Processing: /home/hornik/tmp/CRAN_recheck/qra.Rcheck/vign_test/qra/vignettes/timeMortality_files/figure-html/biObsCLL-4.png 360x342 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 15675 bytes Input file size = 16545 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14517 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 = 14517 Output IDAT size = 14517 bytes (1158 bytes decrease) Output file size = 14595 bytes (1950 bytes = 11.79% decrease) Quitting from timeMortality.Rmd:864-873 [extract-crude-LTcll] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `mm[nms, nms] <- m`: ! replacement has length zero --- Backtrace: ▆ 1. └─qra::extractLT(...) 2. ├─base::summary(obj) 3. └─glmmTMB:::summary.glmmTMB(obj) 4. ├─stats::vcov(object, include_nonest = TRUE) 5. └─glmmTMB:::vcov.glmmTMB(object, include_nonest = TRUE) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'timeMortality.Rmd' failed with diagnostics: replacement has length zero --- failed re-building ‘timeMortality.Rmd’ SUMMARY: processing the following file failed: ‘timeMortality.Rmd’ Error: Vignette re-building failed. Execution halted