• using R Under development (unstable) (2025-02-19 r87749)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 20.1.0-rc2     flang version 20.1.0-rc2
• running under: Fedora Linux 40 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘siland/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘siland’ version ‘3.0.2’
• 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 ‘siland’ can be installed ... [64s/97s] 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 ... [20s/25s] OK
• checking whether the package can be loaded with stated dependencies ... [20s/26s] OK
• checking whether the package can be unloaded cleanly ... [21s/28s] OK
• checking whether the namespace can be loaded with stated dependencies ... [19s/26s] OK
• checking whether the namespace can be unloaded cleanly ... [19s/24s] OK
• checking loading without being on the library search path ... [19s/24s] 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 ... [86s/112s] OK
• checking Rd files ... NOTE checkRd: (-1) siland.Rd:64: Lost braces; missing escapes or markup?     64 | \item x_{l,i}, local variable l,        | ^ checkRd: (-1) siland.Rd:70: Lost braces; missing escapes or markup?     70 | \item d_{r,i} the distance between the center of pixel r and the observation at site i.        | ^
• 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 data for ASCII and uncompressed saves ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [19s/20s] OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [77s/77s] ERROR Error(s) in re-building vignettes: --- re-building ‘siland.Rmd’ using rmarkdown ** Processing: /data/gannet/ripley/R/packages/tests-clang/siland.Rcheck/vign_test/siland/vignettes/siland_files/figure-html/unnamed-chunk-5-1.png 672x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 189382 bytes Input file size = 189736 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 116317   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 = 116317 Output IDAT size = 116317 bytes (73065 bytes decrease) Output file size = 116395 bytes (73341 bytes = 38.65% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/siland.Rcheck/vign_test/siland/vignettes/siland_files/figure-html/unnamed-chunk-9-1.png 672x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 21197 bytes Input file size = 21299 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16939   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 = 16939 Output IDAT size = 16939 bytes (4258 bytes decrease) Output file size = 17017 bytes (4282 bytes = 20.10% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/siland.Rcheck/vign_test/siland/vignettes/siland_files/figure-html/unnamed-chunk-11-1.png 672x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 74002 bytes Input file size = 74188 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 66918   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 = 66918 Output IDAT size = 66918 bytes (7084 bytes decrease) Output file size = 66996 bytes (7192 bytes = 9.69% decrease) ** Processing: /data/gannet/ripley/R/packages/tests-clang/siland.Rcheck/vign_test/siland/vignettes/siland_files/figure-html/unnamed-chunk-13-1.png 672x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 21690 bytes Input file size = 21792 bytes Trying:   zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 17387   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 = 17387 Output IDAT size = 17387 bytes (4303 bytes decrease) Output file size = 17465 bytes (4327 bytes = 19.86% decrease) Quitting from lines 161-162 [unnamed-chunk-14] (siland.Rmd) Error: processing vignette 'siland.Rmd' failed with diagnostics: function cannot be evaluated at initial parameters --- failed re-building ‘siland.Rmd’ SUMMARY: processing the following file failed:   ‘siland.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, 1 NOTE