• using R Under development (unstable) (2025-02-28 r87848)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 20.1.0-rc3     flang version 20.1.0-rc3
• running under: Fedora Linux 40 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘ecostats/DESCRIPTION’ ... OK
• this is package ‘ecostats’ version ‘1.2.1’
• package encoding: UTF-8
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘ecostats’ can be installed ... [18s/23s] OK See the install log for details.
• checking installed package size ... OK
• checking package directory ... OK
• checking ‘build’ directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking code files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... [27s/34s] OK
• checking Rd files ... OK
• checking Rd metadata ... OK
• checking Rd line widths ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [22s/28s] OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [280s/353s] ERROR Error(s) in re-building vignettes: --- re-building ‘Chapter10Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter10Solutions.Rmd’ --- re-building ‘Chapter11Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter11Solutions.Rmd’ --- re-building ‘Chapter12Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter12Solutions.Rmd’ --- re-building ‘Chapter13Solutions.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter13Solutions_files/figure-html/code13.3-1.png 576x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 33249 bytes Input file size = 33375 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25542   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 = 25542 Output IDAT size = 25542 bytes (7707 bytes decrease) Output file size = 25620 bytes (7755 bytes = 23.24% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter13Solutions_files/figure-html/code13.5-1.png 768x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 35853 bytes Input file size = 35979 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27814   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 = 27814 Output IDAT size = 27814 bytes (8039 bytes decrease) Output file size = 27892 bytes (8087 bytes = 22.48% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter13Solutions_files/figure-html/code13.6-1.png 576x576 pixels, 3x8 bits/pixel, RGB Input IDAT size = 29834 bytes Input file size = 29948 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 23479   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 = 23479 Output IDAT size = 23479 bytes (6355 bytes decrease) Output file size = 23557 bytes (6391 bytes = 21.34% decrease) --- finished re-building ‘Chapter13Solutions.Rmd’ --- re-building ‘Chapter14Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter14Solutions.Rmd’ --- re-building ‘Chapter15Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter15Solutions.Rmd’ --- re-building ‘Chapter16Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter16Solutions.Rmd’ --- re-building ‘Chapter17Solutions.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter17Solutions_files/figure-html/code17.1-1.png 672x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 56492 bytes Input file size = 56642 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 45148   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 = 45148 Output IDAT size = 45148 bytes (11344 bytes decrease) Output file size = 45226 bytes (11416 bytes = 20.15% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter17Solutions_files/figure-html/code17.2-1.png 672x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 49922 bytes Input file size = 50072 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 40415   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 = 40415 Output IDAT size = 40415 bytes (9507 bytes decrease) Output file size = 40493 bytes (9579 bytes = 19.13% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter17Solutions_files/figure-html/ex17.2-1.png 672x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 56481 bytes Input file size = 56631 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 44598   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 = 44598 Output IDAT size = 44598 bytes (11883 bytes decrease) Output file size = 44676 bytes (11955 bytes = 21.11% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter17Solutions_files/figure-html/code17.2variation-1.png 672x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 45847 bytes Input file size = 45985 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 36846   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 = 36846 Output IDAT size = 36846 bytes (9001 bytes decrease) Output file size = 36924 bytes (9061 bytes = 19.70% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter17Solutions_files/figure-html/ex17.3cord-1.png 672x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 88650 bytes Input file size = 88848 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 68019   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 = 68019 Output IDAT size = 68019 bytes (20631 bytes decrease) Output file size = 68097 bytes (20751 bytes = 23.36% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter17Solutions_files/figure-html/ex17.3X-1.png 672x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 84854 bytes Input file size = 85052 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 65245   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 = 65245 Output IDAT size = 65245 bytes (19609 bytes decrease) Output file size = 65323 bytes (19729 bytes = 23.20% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter17Solutions_files/figure-html/code17.3-1.png 672x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 64260 bytes Input file size = 64422 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 43452   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 = 43452 Output IDAT size = 43452 bytes (20808 bytes decrease) Output file size = 43530 bytes (20892 bytes = 32.43% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter17Solutions_files/figure-html/ex17.4-1.png 672x336 pixels, 3x8 bits/pixel, RGB Input IDAT size = 39518 bytes Input file size = 39644 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 32734   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 = 32734 Output IDAT size = 32734 bytes (6784 bytes decrease) Output file size = 32812 bytes (6832 bytes = 17.23% decrease) --- finished re-building ‘Chapter17Solutions.Rmd’ --- re-building ‘Chapter1Solutions.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter1Solutions_files/figure-html/proptest graph-1.png 480x288 pixels, 8 bits/pixel, 244 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 2638 bytes Input file size = 3460 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 2169   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 2152   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 = 2152 Output IDAT size = 2152 bytes (486 bytes decrease) Output file size = 2230 bytes (1230 bytes = 35.55% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter1Solutions_files/figure-html/ravens plot-1.png 480x288 pixels, 8 bits/pixel, 234 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 2701 bytes Input file size = 3493 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 2172   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 = 2172 Output IDAT size = 2172 bytes (529 bytes decrease) Output file size = 2250 bytes (1243 bytes = 35.59% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter1Solutions_files/figure-html/guineapigs plot-1.png 576x288 pixels, 8 bits/pixel, 242 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 2974 bytes Input file size = 3790 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 2525   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 2525   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 = 2525 Output IDAT size = 2525 bytes (449 bytes decrease) Output file size = 2603 bytes (1187 bytes = 31.32% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter1Solutions_files/figure-html/Code 1.2-1.png 768x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 26316 bytes Input file size = 26430 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21456   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 = 21456 Output IDAT size = 21456 bytes (4860 bytes decrease) Output file size = 21534 bytes (4896 bytes = 18.52% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter1Solutions_files/figure-html/Code 1.3-1.png 384x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 15867 bytes Input file size = 15957 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12334   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 = 12334 Output IDAT size = 12334 bytes (3533 bytes decrease) Output file size = 12412 bytes (3545 bytes = 22.22% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter1Solutions_files/figure-html/global plants-1.png 384x384 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 6537 bytes Input file size = 7395 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 5928   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 5898   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 = 5898 Output IDAT size = 5898 bytes (639 bytes decrease) Output file size = 5976 bytes (1419 bytes = 19.19% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter1Solutions_files/figure-html/global plants logHt-1.png 384x384 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 6495 bytes Input file size = 7353 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 5760   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 5734   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 = 5734 Output IDAT size = 5734 bytes (761 bytes decrease) Output file size = 5812 bytes (1541 bytes = 20.96% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter1Solutions_files/figure-html/seaweed plot-1.png 384x384 pixels, 8 bits/pixel, 242 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 3503 bytes Input file size = 4319 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 2836   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 = 2836 Output IDAT size = 2836 bytes (667 bytes decrease) Output file size = 2914 bytes (1405 bytes = 32.53% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter1Solutions_files/figure-html/seaweed transform-1.png 768x384 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 11085 bytes Input file size = 11955 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9869   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 9810   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 = 9810 Output IDAT size = 9810 bytes (1275 bytes decrease) Output file size = 9888 bytes (2067 bytes = 17.29% decrease) --- finished re-building ‘Chapter1Solutions.Rmd’ --- re-building ‘Chapter2Solutions.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/guineapig qqplots-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 14656 bytes Input file size = 14746 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10900   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 = 10900 Output IDAT size = 10900 bytes (3756 bytes decrease) Output file size = 10978 bytes (3768 bytes = 25.55% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/guineapig qqplots-2.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 14730 bytes Input file size = 14820 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10872   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 = 10872 Output IDAT size = 10872 bytes (3858 bytes decrease) Output file size = 10950 bytes (3870 bytes = 26.11% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/waterQuality scatterplot-1.png 288x288 pixels, 8 bits/pixel, 255 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 5049 bytes Input file size = 5904 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4487   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 4464   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 = 4464 Output IDAT size = 4464 bytes (585 bytes decrease) Output file size = 4542 bytes (1362 bytes = 23.07% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/waterQuality resplots-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 17502 bytes Input file size = 17604 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12625   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 = 12625 Output IDAT size = 12625 bytes (4877 bytes decrease) Output file size = 12703 bytes (4901 bytes = 27.84% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/waterQuality resplots-2.png 288x288 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 7163 bytes Input file size = 8021 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 6650   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 6544   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 = 6544 Output IDAT size = 6544 bytes (619 bytes decrease) Output file size = 6622 bytes (1399 bytes = 17.44% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/waterQuality simenvelope-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 14301 bytes Input file size = 14391 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10611   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 = 10611 Output IDAT size = 10611 bytes (3690 bytes decrease) Output file size = 10689 bytes (3702 bytes = 25.72% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/waterQuality simenvelope-2.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 13360 bytes Input file size = 13450 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10036   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 = 10036 Output IDAT size = 10036 bytes (3324 bytes decrease) Output file size = 10114 bytes (3336 bytes = 24.80% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/globalPlants lm-1.png 288x288 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 7361 bytes Input file size = 8219 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 6792   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 6733   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 = 6733 Output IDAT size = 6733 bytes (628 bytes decrease) Output file size = 6811 bytes (1408 bytes = 17.13% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/globalPlants lm-2.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 20564 bytes Input file size = 20666 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14471   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 = 14471 Output IDAT size = 14471 bytes (6093 bytes decrease) Output file size = 14549 bytes (6117 bytes = 29.60% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/globalPlants lm-3.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 14467 bytes Input file size = 14557 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10675   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 = 10675 Output IDAT size = 10675 bytes (3792 bytes decrease) Output file size = 10753 bytes (3804 bytes = 26.13% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/globalPlants loglm-1.png 288x288 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 9401 bytes Input file size = 10271 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8765   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 8656   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 = 8656 Output IDAT size = 8656 bytes (745 bytes decrease) Output file size = 8734 bytes (1537 bytes = 14.96% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/globalPlants loglm-2.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 25483 bytes Input file size = 25597 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17986   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 = 17986 Output IDAT size = 17986 bytes (7497 bytes decrease) Output file size = 18064 bytes (7533 bytes = 29.43% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/globalPlants loglm-3.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 15016 bytes Input file size = 15106 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 11201   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 = 11201 Output IDAT size = 11201 bytes (3815 bytes decrease) Output file size = 11279 bytes (3827 bytes = 25.33% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/guineapigs ttest log-transform-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 12707 bytes Input file size = 12797 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9422   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 = 9422 Output IDAT size = 9422 bytes (3285 bytes decrease) Output file size = 9500 bytes (3297 bytes = 25.76% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/guineapigs ttest log-transform-2.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 14218 bytes Input file size = 14308 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10568   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 = 10568 Output IDAT size = 10568 bytes (3650 bytes decrease) Output file size = 10646 bytes (3662 bytes = 25.59% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter2Solutions_files/figure-html/guineapigs ttest log-transform slplot-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 14326 bytes Input file size = 14416 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10687   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 = 10687 Output IDAT size = 10687 bytes (3639 bytes decrease) Output file size = 10765 bytes (3651 bytes = 25.33% decrease) --- finished re-building ‘Chapter2Solutions.Rmd’ --- re-building ‘Chapter3Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter3Solutions.Rmd’ --- re-building ‘Chapter4Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter4Solutions.Rmd’ --- re-building ‘Chapter5Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter5Solutions.Rmd’ --- re-building ‘Chapter6Solutions.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter6Solutions_files/figure-html/fig6.1-1.png 576x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16554 bytes Input file size = 16656 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12889   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 = 12889 Output IDAT size = 12889 bytes (3665 bytes decrease) Output file size = 12967 bytes (3689 bytes = 22.15% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter6Solutions_files/figure-html/code62-1.png 768x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 31444 bytes Input file size = 31558 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 24705   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 = 24705 Output IDAT size = 24705 bytes (6739 bytes decrease) Output file size = 24783 bytes (6775 bytes = 21.47% decrease) Quitting from lines 80-81 [code64] (Chapter6Solutions.Rmd) Error: processing vignette 'Chapter6Solutions.Rmd' failed with diagnostics: Profiling over both the residual variance and fixed effects is not numerically consistent with profiling over the fixed effects only (relative difference: 1); consider adjusting devmatchtol --- failed re-building ‘Chapter6Solutions.Rmd’ --- re-building ‘Chapter7Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter7Solutions.Rmd’ --- re-building ‘Chapter8Solutions.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box82-1.png 384x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 24559 bytes Input file size = 24661 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17849   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 = 17849 Output IDAT size = 17849 bytes (6710 bytes decrease) Output file size = 17927 bytes (6734 bytes = 27.31% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box82-2.png 384x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 20060 bytes Input file size = 20162 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 15133   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 = 15133 Output IDAT size = 15133 bytes (4927 bytes decrease) Output file size = 15211 bytes (4951 bytes = 24.56% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box84-1.png 480x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 58111 bytes Input file size = 58273 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 49399   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 = 49399 Output IDAT size = 49399 bytes (8712 bytes decrease) Output file size = 49477 bytes (8796 bytes = 15.09% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box85-1.png 384x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 35038 bytes Input file size = 35164 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 24590   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 = 24590 Output IDAT size = 24590 bytes (10448 bytes decrease) Output file size = 24668 bytes (10496 bytes = 29.85% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box85-2.png 384x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 28062 bytes Input file size = 28176 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 19445   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 = 19445 Output IDAT size = 19445 bytes (8617 bytes decrease) Output file size = 19523 bytes (8653 bytes = 30.71% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box86-1.png 672x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 24383 bytes Input file size = 24485 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20155   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 = 20155 Output IDAT size = 20155 bytes (4228 bytes decrease) Output file size = 20233 bytes (4252 bytes = 17.37% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box87-1.png 672x336 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 30890 bytes Input file size = 31784 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 29983   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 29385   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 = 28884   zc = 9 zm = 8 zs = 1 f = 5 IDAT size = 28504   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 = 28504 Output IDAT size = 28504 bytes (2386 bytes decrease) Output file size = 28582 bytes (3202 bytes = 10.07% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box87 sim-1.png 672x336 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 35699 bytes Input file size = 36605 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 34879   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 34066   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 = 32656   zc = 9 zm = 8 zs = 1 f = 5 IDAT size = 32139   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 = 32139 Output IDAT size = 32139 bytes (3560 bytes decrease) Output file size = 32217 bytes (4388 bytes = 11.99% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box88-1.png 672x336 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 32345 bytes Input file size = 33239 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 31356   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 30806   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 = 30806 Output IDAT size = 30806 bytes (1539 bytes decrease) Output file size = 30884 bytes (2355 bytes = 7.09% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box89-1.png 480x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 13625 bytes Input file size = 13715 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10768   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 = 10768 Output IDAT size = 10768 bytes (2857 bytes decrease) Output file size = 10846 bytes (2869 bytes = 20.92% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/box89-2.png 480x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 13992 bytes Input file size = 14082 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10849   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 = 10849 Output IDAT size = 10849 bytes (3143 bytes decrease) Output file size = 10927 bytes (3155 bytes = 22.40% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/ex86-1.png 672x336 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 32203 bytes Input file size = 33097 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 31273   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 30739   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 = 30739 Output IDAT size = 30739 bytes (1464 bytes decrease) Output file size = 30817 bytes (2280 bytes = 6.89% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/ex87-1.png 480x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 12364 bytes Input file size = 12454 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9756   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 = 9756 Output IDAT size = 9756 bytes (2608 bytes decrease) Output file size = 9834 bytes (2620 bytes = 21.04% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/Chapter8Solutions_files/figure-html/ex87-2.png 480x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 13512 bytes Input file size = 13602 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10603   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 = 10603 Output IDAT size = 10603 bytes (2909 bytes decrease) Output file size = 10681 bytes (2921 bytes = 21.47% decrease) --- finished re-building ‘Chapter8Solutions.Rmd’ --- re-building ‘Chapter9Solutions.Rmd’ using rmarkdown --- finished re-building ‘Chapter9Solutions.Rmd’ --- re-building ‘ecostats.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/ecostats_files/figure-html/unnamed-chunk-1-1.png 768x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 98748 bytes Input file size = 98970 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 81011   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 = 81011 Output IDAT size = 81011 bytes (17737 bytes decrease) Output file size = 81089 bytes (17881 bytes = 18.07% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/ecostats_files/figure-html/unnamed-chunk-2-1.png 384x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 17029 bytes Input file size = 17131 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 13030   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 = 13030 Output IDAT size = 13030 bytes (3999 bytes decrease) Output file size = 13108 bytes (4023 bytes = 23.48% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/ecostats.Rcheck/vign_test/ecostats/vignettes/ecostats_files/figure-html/aphidData-1.png 576x384 pixels, 3x8 bits/pixel, RGB Input IDAT size = 32824 bytes Input file size = 32950 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25167   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 = 25167 Output IDAT size = 25167 bytes (7657 bytes decrease) Output file size = 25245 bytes (7705 bytes = 23.38% decrease) --- finished re-building ‘ecostats.Rmd’ SUMMARY: processing the following file failed:   ‘Chapter6Solutions.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [8s/11s] OK
• checking HTML version of manual ... OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 1 ERROR