* using log directory 'd:/RCompile/CRANincoming/R-devel/admix.Rcheck'
* using R Under development (unstable) (2024-10-22 r87264 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 'admix/DESCRIPTION' ... OK
* this is package 'admix' version '2.3.1'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [15s] NOTE
Maintainer: 'Xavier Milhaud <xavier.milhaud.research@gmail.com>'

Possibly misspelled words in DESCRIPTION:
  hal (26:53)

Found the following (possibly) invalid URLs:
  URL: http://jmlr.org/papers/v25/23-0914.html (moved to https://jmlr.org/papers/v25/23-0914.html)
    From: man/IBM_k_samples_test.Rd
          man/admix_cluster.Rd
          man/admix_test.Rd
          inst/doc/admixture-clustering.html
          inst/doc/test-hypothesis.html
    Status: 301
    Message: Moved Permanently
  URL: https://github.com/XavierMilhaud/admix (moved to https://github.com/XavierMilhaud/admix-Rpackage)
    From: DESCRIPTION
          man/admix-package.Rd
          README.md
    Status: 301
    Message: Moved Permanently
  URL: https://github.com/XavierMilhaud/admix/actions/workflows/R-CMD-check.yaml (moved to https://github.com/XavierMilhaud/admix-Rpackage/actions/workflows/R-CMD-check.yaml)
    From: README.md
    Status: 301
    Message: Moved Permanently
  URL: https://github.com/XavierMilhaud/admix/actions/workflows/pages/pages-build-deployment (moved to https://github.com/XavierMilhaud/admix-Rpackage/actions/workflows/pages/pages-build-deployment)
    From: README.md
    Status: 301
    Message: Moved Permanently
  URL: https://github.com/XavierMilhaud/admix/actions/workflows/pkgdown.yaml (moved to https://github.com/XavierMilhaud/admix-Rpackage/actions/workflows/pkgdown.yaml)
    From: README.md
    Status: 301
    Message: Moved Permanently
  URL: https://github.com/XavierMilhaud/admix/actions/workflows/test-coverage.yaml (moved to https://github.com/XavierMilhaud/admix-Rpackage/actions/workflows/test-coverage.yaml)
    From: README.md
    Status: 301
    Message: Moved Permanently
  URL: https://github.com/XavierMilhaud/admix/issues (moved to https://github.com/XavierMilhaud/admix-Rpackage/issues)
    From: DESCRIPTION
          man/admix-package.Rd
    Status: 301
    Message: Moved Permanently
  URL: https://xaviermilhaud.github.io/admix/
    From: README.md
    Status: 404
    Message: Not Found
For content that is 'Moved Permanently', please change http to https,
add trailing slashes, or replace the old by the new URL.

The Title field should be in title case. Current version is:
  'Package admix for admixture (aka contamination) models'
In title case that is:
  'Package Admix for Admixture (aka Contamination) Models'
* 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 'admix' can be installed ... OK
* used C++ compiler: 'g++.exe (GCC) 13.2.0'
* 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 ... 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 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 ... [18s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
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* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [43s] NOTE
Examples with CPU (user + system) or elapsed time > 10s
            user system elapsed
admix_estim 11.8   4.61   16.42
admix_test  10.0   0.91   10.90
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [243s] OK
* checking PDF version of manual ... [22s] OK
* checking HTML version of manual ... OK
* DONE
Status: 2 NOTEs