* using log directory ‘/srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck’ * using R Under development (unstable) (2025-05-18 r88216) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 19.1.7 (3) Debian flang-new version 19.1.7 (3) * running under: Debian GNU/Linux 13 (trixie) * using session charset: UTF-8 * checking for file ‘ggpedigree/DESCRIPTION’ ... OK * this is package ‘ggpedigree’ version ‘0.4.0’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [4s/6s] NOTE Maintainer: ‘S. Mason Garrison ’ New submission Possibly misspelled words in DESCRIPTION: Sinnwell (9:330) al (9:157, 9:342) et (9:154, 9:339) * 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 ‘ggpedigree’ can be installed ... [2s/2s] OK * checking package directory ... OK * checking for future file timestamps ... 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 ... [0s/0s] OK * checking whether the package can be loaded with stated dependencies ... [0s/0s] OK * checking whether the package can be unloaded cleanly ... [0s/0s] OK * checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK * checking whether the namespace can be unloaded cleanly ... [0s/0s] OK * checking loading without being on the library search path ... [0s/0s] 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 ... [3s/3s] OK * checking Rd files ... [0s/0s] 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 ... [0s/0s] 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 ... [4s/4s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [9s/9s] OK Running ‘testthat.R’ [9s/9s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [27s/67s] ERROR Error(s) in re-building vignettes: ... --- re-building ‘v0_plots.Rmd’ using rmarkdown ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/basic-usage-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 13480 bytes Input file size = 13570 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12115 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 = 11923 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 = 11923 Output IDAT size = 11923 bytes (1557 bytes decrease) Output file size = 12001 bytes (1569 bytes = 11.56% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/customize-aesthetics-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16289 bytes Input file size = 16379 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14094 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 = 14094 Output IDAT size = 14094 bytes (2195 bytes decrease) Output file size = 14172 bytes (2207 bytes = 13.47% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/unnamed-chunk-1-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 19651 bytes Input file size = 19753 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17260 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 = 17260 Output IDAT size = 17260 bytes (2391 bytes decrease) Output file size = 17338 bytes (2415 bytes = 12.23% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/unnamed-chunk-2-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 39425 bytes Input file size = 39551 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 30619 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 = 30619 Output IDAT size = 30619 bytes (8806 bytes decrease) Output file size = 30697 bytes (8854 bytes = 22.39% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/unnamed-chunk-3-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 15163 bytes Input file size = 15253 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12854 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 = 12854 Output IDAT size = 12854 bytes (2309 bytes decrease) Output file size = 12932 bytes (2321 bytes = 15.22% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/unnamed-chunk-4-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16863 bytes Input file size = 16965 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14221 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 = 14221 Output IDAT size = 14221 bytes (2642 bytes decrease) Output file size = 14299 bytes (2666 bytes = 15.71% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/unnamed-chunk-5-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 14192 bytes Input file size = 14282 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12677 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 = 12634 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 = 12634 Output IDAT size = 12634 bytes (1558 bytes decrease) Output file size = 12712 bytes (1570 bytes = 10.99% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/facet_wrap-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16238 bytes Input file size = 16328 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 13538 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 = 13538 Output IDAT size = 13538 bytes (2700 bytes decrease) Output file size = 13616 bytes (2712 bytes = 16.61% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/unnamed-chunk-6-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16486 bytes Input file size = 16588 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14049 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 = 14049 Output IDAT size = 14049 bytes (2437 bytes decrease) Output file size = 14127 bytes (2461 bytes = 14.84% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/self-loops-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 48253 bytes Input file size = 48391 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 36583 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 = 36583 Output IDAT size = 36583 bytes (11670 bytes decrease) Output file size = 36661 bytes (11730 bytes = 24.24% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v0_plots_files/figure-html/unnamed-chunk-9-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 16519 bytes Input file size = 16621 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14202 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 = 14202 Output IDAT size = 14202 bytes (2317 bytes decrease) Output file size = 14280 bytes (2341 bytes = 14.08% decrease) --- finished re-building ‘v0_plots.Rmd’ --- re-building ‘v1_interactiveplots.Rmd’ using rmarkdown ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v1_interactiveplots_files/figure-html/static-plot-customization-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 18401 bytes Input file size = 18503 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 15990 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 = 15990 Output IDAT size = 15990 bytes (2411 bytes decrease) Output file size = 16068 bytes (2435 bytes = 13.16% decrease) --- finished re-building ‘v1_interactiveplots.Rmd’ --- re-building ‘v2_matrix.Rmd’ using rmarkdown ** Processing: /srv/hornik/tmp/CRAN_pretest/ggpedigree.Rcheck/vign_test/ggpedigree/vignettes/v2_matrix_files/figure-html/unnamed-chunk-3-1.png 672x480 pixels, 3x8 bits/pixel, RGB Input IDAT size = 84580 bytes Input file size = 84778 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 76387 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 = 76387 Output IDAT size = 76387 bytes (8193 bytes decrease) Output file size = 76465 bytes (8313 bytes = 9.81% decrease) Quitting from v2_matrix.Rmd:119-122 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `curl::curl_download()`: ! HTTP response code said error [cdn.plot.ly]: The requested URL returned error: 503 --- Backtrace: ▆ 1. ├─plotly::partial_bundle(p_mit) 2. │ ├─plotly::plotly_build(p) 3. │ └─plotly:::plotly_build.plotly(p) 4. │ └─plotly:::verify_partial_bundle(p) 5. │ └─curl::curl_download(...) 6. └─curl:::raise_libcurl_error(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'v2_matrix.Rmd' failed with diagnostics: HTTP response code said error [cdn.plot.ly]: The requested URL returned error: 503 --- failed re-building ‘v2_matrix.Rmd’ SUMMARY: processing the following file failed: ‘v2_matrix.Rmd’ Error: Vignette re-building failed. Execution halted * checking PDF version of manual ... [3s/3s] OK * checking HTML version of manual ... [0s/0s] OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 ERROR, 1 NOTE