* using log directory 'd:/RCompile/CRANincoming/R-devel/PopGenHelpR.Rcheck'
* using R Under development (unstable) (2024-05-07 r86527 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'PopGenHelpR/DESCRIPTION' ... OK
* this is package 'PopGenHelpR' version '1.3.0'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Keaka Farleigh <keakafarleigh@gmail.com>'

Found the following (possibly) invalid URLs:
  URL: https://royalsocietypublishing.org/doi/abs/10.1098/rspb.2001.1751?casa_token=aXK15yYNjpEAAAAA%3ATR6IXyuIl03yygS_CWET4ymKFthc0dxwkpgCRGGZL250Am_Ssbxi9bnTDIQmpNnshM7H6vTZ1v83PD0
    From: man/Heterozygosity.Rd
    Status: 403
    Message: Forbidden
  URL: https://www.journals.uchicago.edu/doi/abs/10.1086/282771
    From: man/Differentiation.Rd
    Status: 403
    Message: Forbidden

Found the following URLs which should use \doi (with the DOI name only):
  File 'Differentiation.Rd':
    https://doi.org/10.1111/1755-0998.12129
    https://doi.org/10.1111/j.1365-294X.2008.03887.x
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking serialization versions ... OK
* checking whether package 'PopGenHelpR' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
Non-standard files/directories found at top level:
  'CRAN-SUBMISSION' 'cran-comments.md'
* 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 ... [11s] 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 'tests' ... OK
* checking tests ... OK
  Running 'testthat.R'
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... [15s] OK
* checking HTML version of manual ... OK
* DONE
Status: 2 NOTEs