• using R Under development (unstable) (2025-02-12 r87715)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 19.1.7     flang-new version 19.1.7
• running under: Fedora Linux 40 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘stratifyR/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘stratifyR’ version ‘1.0-3’
• 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 ‘stratifyR’ can be installed ... [24s/38s] 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 ... [5s/12s] OK
• checking whether the package can be loaded with stated dependencies ... [5s/13s] OK
• checking whether the package can be unloaded cleanly ... [5s/14s] 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 ... [5s/13s] 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 ... [40s/82s] 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 ... OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [86s/113s] ERROR Error(s) in re-building vignettes: --- re-building ‘stratifyR-vignette.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-clang/stratifyR.Rcheck/vign_test/stratifyR/vignettes/stratifyR-vignette_files/figure-html/unnamed-chunk-1-1.png 768x576 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 10400 bytes Input file size = 11270 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9150   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 9083   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 = 9083 Output IDAT size = 9083 bytes (1317 bytes decrease) Output file size = 9161 bytes (2109 bytes = 18.71% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/stratifyR.Rcheck/vign_test/stratifyR/vignettes/stratifyR-vignette_files/figure-html/unnamed-chunk-2-1.png 768x576 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 11478 bytes Input file size = 12348 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10127   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 10052   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 = 10052 Output IDAT size = 10052 bytes (1426 bytes decrease) Output file size = 10130 bytes (2218 bytes = 17.96% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/stratifyR.Rcheck/vign_test/stratifyR/vignettes/stratifyR-vignette_files/figure-html/unnamed-chunk-3-1.png 768x576 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 12100 bytes Input file size = 12970 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10821   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 = 10821 Output IDAT size = 10821 bytes (1279 bytes decrease) Output file size = 10899 bytes (2071 bytes = 15.97% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/stratifyR.Rcheck/vign_test/stratifyR/vignettes/stratifyR-vignette_files/figure-html/unnamed-chunk-5-1.png 768x576 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 11626 bytes Input file size = 12496 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10322   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 10219   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 = 10219 Output IDAT size = 10219 bytes (1407 bytes decrease) Output file size = 10297 bytes (2199 bytes = 17.60% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/stratifyR.Rcheck/vign_test/stratifyR/vignettes/stratifyR-vignette_files/figure-html/unnamed-chunk-7-1.png 768x576 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 10506 bytes Input file size = 11376 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9158   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 9096   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 = 9096 Output IDAT size = 9096 bytes (1410 bytes decrease) Output file size = 9174 bytes (2202 bytes = 19.36% decrease) Quitting from lines 636-641 [unnamed-chunk-9] (stratifyR-vignette.Rmd) Error: processing vignette 'stratifyR-vignette.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘stratifyR-vignette.Rmd’ SUMMARY: processing the following file failed:   ‘stratifyR-vignette.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... 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