* using log directory 'd:/RCompile/CRANincoming/R-devel/enmSdmX.Rcheck'
* using R version 4.5.0 alpha (2025-03-25 r88054 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'enmSdmX/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'enmSdmX' version '1.2.12'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [18s] NOTE
Maintainer: 'Adam B. Smith <adam.smith@mobot.org>'

Found the following (possibly) invalid URLs:
  URL: 'https://www.iucnredlist.org'
    From: inst/doc/01_biodiversity_data.html
    Message: Invalid URI scheme
  URL: https://doi.org/101017/9781139028271
    From: inst/doc/00_getting_started.html
    Status: 404
    Message: Not Found
  URL: https://doi.org/101111/ecog07346
    From: inst/doc/00_getting_started.html
    Status: 404
    Message: Not Found
  URL: https://www.doi.org/10.1073/pnas.0901637106
    From: inst/doc/15_niche_vs_distribution_modeling.html
    Status: 403
    Message: Forbidden
  URL: https://www.doi.org/10.1111/j.1365-2656.2008.01390.x
    From: inst/doc/17_other_algorithms.html
    Status: 403
    Message: Forbidden
  URL: https://www.doi.org/10.1111/j.1461-0248.2007.01107.x
    From: inst/doc/15_niche_vs_distribution_modeling.html
    Status: 403
    Message: Forbidden
  URL: https://www.doi/org/10.1016/j.tree.2012.03.010
    From: inst/doc/15_niche_vs_distribution_modeling.html
    Status: Error
    Message: Could not resolve hostname [www.doi]: Could not resolve host: www.doi
  URL: https://www.worldclim.org/bioclim
    From: inst/doc/03_environmental_data.html
          inst/doc/04_environmental_data_processing.html
          inst/doc/07_selecting_predictors.html
          inst/doc/17_other_algorithms.html
    Status: 403
    Message: Forbidden

Size of tarball: 32386082 bytes
* 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 whether package 'enmSdmX' 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 ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... WARNING
Subdirectory 'inst/doc' contains invalid file names:
  '00_getting_started.Rmd' '01_biodiversity_data.Rmd'
  '02_study_region.Rmd' '03_environmental_data.Rmd'
  '04_environmental_data_processing.Rmd'
  '05_matching_biodiversity_data_to_the_environment.Rmd'
  '06_background_sites.Rmd' '07_selecting_predictors.Rmd'
  '08_our_first_sdm.Rmd' '09_maxent.Rmd'
  '10_tuning_maxent_features.Rmd' '11_tuning_maxent_regularization.Rmd'
  '12_bias_correction_i.Rmd' '12_bias_correction_ii.Rmd'
  '13_model_evaluation_metrics.Rmd'
  '14_model_evaluation_cross_validation.Rmd'
  '15_niche_vs_distribution_modeling.Rmd' '16_projecting_models.Rmd'
  '17_other_algorithms.Rmd' '19_sdm_workflow.Rmd'
  '00_getting_started.html' '01_biodiversity_data.html'
  '02_study_region.html' '03_environmental_data.html'
  '04_environmental_data_processing.html'
  '05_matching_biodiversity_data_to_the_environment.html'
  '06_background_sites.html' '07_selecting_predictors.html'
  '08_our_first_sdm.html' '09_maxent.html'
  '10_tuning_maxent_features.html'
  '11_tuning_maxent_regularization.html' '12_bias_correction_i.html'
  '12_bias_correction_ii.html' '13_model_evaluation_metrics.html'
  '14_model_evaluation_cross_validation.html'
  '15_niche_vs_distribution_modeling.html' '16_projecting_models.html'
  '17_other_algorithms.html' '19_sdm_workflow.html'
Please remove or rename the files.
See section 'Package subdirectories' in the 'Writing R Extensions'
manual.
* 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 whether startup messages can be suppressed ... 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 ... [24s] 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 ... [42s] OK
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' calls not declared from:
  'brglm2' 'cluster' 'gecko' 'rgbif'
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... [31s] OK
* checking HTML version of manual ... [17s] OK
* DONE
Status: 1 WARNING, 2 NOTEs