• using R Under development (unstable) (2025-01-30 r87669)
• 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 36 (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/30s] 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 ... [39s/51s] 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 ... [88s/101s] 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 = 10482 bytes Input file size = 11352 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9216   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 9178   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 = 9178 Output IDAT size = 9178 bytes (1304 bytes decrease) Output file size = 9256 bytes (2096 bytes = 18.46% 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 = 11568 bytes Input file size = 12438 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10144   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 10095   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 = 10095 Output IDAT size = 10095 bytes (1473 bytes decrease) Output file size = 10173 bytes (2265 bytes = 18.21% 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 = 12104 bytes Input file size = 12974 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10889   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 = 10889 Output IDAT size = 10889 bytes (1215 bytes decrease) Output file size = 10967 bytes (2007 bytes = 15.47% 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 = 11722 bytes Input file size = 12592 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 10294   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 10234   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 = 10234 Output IDAT size = 10234 bytes (1488 bytes decrease) Output file size = 10312 bytes (2280 bytes = 18.11% 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 = 10575 bytes Input file size = 11445 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9153   zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 9128   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 = 9128 Output IDAT size = 9128 bytes (1447 bytes decrease) Output file size = 9206 bytes (2239 bytes = 19.56% 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 ... [7s/12s] 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