* using log directory 'd:/RCompile/CRANincoming/R-devel/varTestnlme.Rcheck'
* using R Under development (unstable) (2023-09-20 r85183 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 12.2.0
    GNU Fortran (GCC) 12.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'varTestnlme/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'varTestnlme' version '1.3.5'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [14s] NOTE
Maintainer: 'Charlotte Baey <charlotte.baey@univ-lille.fr>'

Found the following (possibly) invalid URLs:
  URL: https://doi.org/10.18637/jss.v107.i06
    From: README.md
    Status: 404
    Message: Not Found

Found the following (possibly) invalid DOIs:
  DOI: 10.18637/jss.v107.i06
    From: DESCRIPTION
          inst/CITATION
    Status: 404
    Message: Not Found
* 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 'varTestnlme' 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:
  'omegas0_lmer.rds' 'omegas0_saemix.rds' 'omegas1_lmer.rds'
  'omegas1_saemix.rds'
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R 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 ... WARNING
bootinvFIM:
  function(m, B)
bootinvFIM.lme:
  function(m, B, seed)

bootinvFIM:
  function(m, B)
bootinvFIM.merMod:
  function(m, B, seed)
See section 'Generic functions and methods' in the 'Writing R
Extensions' manual.
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... 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 ... WARNING
Codoc mismatches from documentation object 'bootinvFIM.lme':
bootinvFIM.lme
  Code: function(m, B = 1000, seed = 0)
  Docs: function(m, B = 1000)
  Argument names in code not in docs:
    seed

Codoc mismatches from documentation object 'bootinvFIM.merMod':
bootinvFIM.merMod
  Code: function(m, B = 1000, seed = 0)
  Docs: function(m, B = 1000)
  Argument names in code not in docs:
    seed

* 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 ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... [13s] OK
* checking HTML version of manual ... OK
* DONE
Status: 2 WARNINGs, 2 NOTEs