* using log directory ‘/srv/hornik/tmp/CRAN_pretest/maxent.ot.Rcheck’ * using R Under development (unstable) (2024-09-17 r87161) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 18.1.8 (9) Debian flang-new version 18.1.8 (9) * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘maxent.ot/DESCRIPTION’ ... OK * this is package ‘maxent.ot’ version ‘1.0.0’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [3s/5s] NOTE Maintainer: ‘Connor Mayer ’ New submission Possibly misspelled words in DESCRIPTION: MaxEnt (2:16) Found the following (possibly) invalid URLs: URL: https://www.linkedin.com/in/adeline-tan-ph-d-aa67742a9 From: README.md Status: 999 * 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 serialization versions ... OK * checking whether package ‘maxent.ot’ can be installed ... [1s/1s] 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 ... [2s/2s] OK * checking Rd files ... [0s/0s] NOTE checkRd: (-1) compare_models.Rd:68-82: Lost braces in \itemize; meant \describe ? checkRd: (-1) compare_models.Rd:84-90: Lost braces in \itemize; meant \describe ? checkRd: (-1) compare_models.Rd:92-101: Lost braces in \itemize; meant \describe ? checkRd: (-1) compare_models.Rd:103-109: Lost braces in \itemize; meant \describe ? * 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 installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [1s/1s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [3s/3s] OK Running ‘testthat.R’ [3s/3s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [16s/16s] ERROR Error(s) in re-building vignettes: ... --- re-building ‘maxent-ot_vignette.Rmd’ using rmarkdown ** Processing: /srv/hornik/tmp/CRAN_pretest/maxent.ot.Rcheck/vign_test/maxent.ot/vignettes/maxent-ot_vignette_files/figure-html/unnamed-chunk-5-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 9862 bytes Input file size = 9952 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 7634 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 = 7634 Output IDAT size = 7634 bytes (2228 bytes decrease) Output file size = 7712 bytes (2240 bytes = 22.51% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/maxent.ot.Rcheck/vign_test/maxent.ot/vignettes/maxent-ot_vignette_files/figure-html/unnamed-chunk-41-1.png 288x288 pixels, 8 bits/pixel, 254 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 3808 bytes Input file size = 4660 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 3414 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 = 3414 Output IDAT size = 3414 bytes (394 bytes decrease) Output file size = 3492 bytes (1168 bytes = 25.06% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/maxent.ot.Rcheck/vign_test/maxent.ot/vignettes/maxent-ot_vignette_files/figure-html/unnamed-chunk-41-2.png 288x288 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 4321 bytes Input file size = 5179 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 3882 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 = 3882 Output IDAT size = 3882 bytes (439 bytes decrease) Output file size = 3960 bytes (1219 bytes = 23.54% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/maxent.ot.Rcheck/vign_test/maxent.ot/vignettes/maxent-ot_vignette_files/figure-html/unnamed-chunk-49-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 10962 bytes Input file size = 11052 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8438 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 = 8438 Output IDAT size = 8438 bytes (2524 bytes decrease) Output file size = 8516 bytes (2536 bytes = 22.95% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/maxent.ot.Rcheck/vign_test/maxent.ot/vignettes/maxent-ot_vignette_files/figure-html/unnamed-chunk-49-2.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 11700 bytes Input file size = 11790 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8982 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 = 8982 Output IDAT size = 8982 bytes (2718 bytes decrease) Output file size = 9060 bytes (2730 bytes = 23.16% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/maxent.ot.Rcheck/vign_test/maxent.ot/vignettes/maxent-ot_vignette_files/figure-html/unnamed-chunk-49-3.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 11660 bytes Input file size = 11750 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8819 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 = 8819 Output IDAT size = 8819 bytes (2841 bytes decrease) Output file size = 8897 bytes (2853 bytes = 24.28% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/maxent.ot.Rcheck/vign_test/maxent.ot/vignettes/maxent-ot_vignette_files/figure-html/unnamed-chunk-49-4.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 11102 bytes Input file size = 11192 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8685 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 = 8685 Output IDAT size = 8685 bytes (2417 bytes decrease) Output file size = 8763 bytes (2429 bytes = 21.70% decrease) ** Processing: /srv/hornik/tmp/CRAN_pretest/maxent.ot.Rcheck/vign_test/maxent.ot/vignettes/maxent-ot_vignette_files/figure-html/unnamed-chunk-49-5.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 10904 bytes Input file size = 10994 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8544 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 = 8544 Output IDAT size = 8544 bytes (2360 bytes decrease) Output file size = 8622 bytes (2372 bytes = 21.58% decrease) Quitting from lines 1668-1669 [unnamed-chunk-56] (maxent-ot_vignette.Rmd) Error: processing vignette 'maxent-ot_vignette.Rmd' failed with diagnostics: Cannot find the file(s): "../man/figures/aicWeight_table.JPG" --- failed re-building ‘maxent-ot_vignette.Rmd’ SUMMARY: processing the following file failed: ‘maxent-ot_vignette.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, 2 NOTEs