* using log directory ‘/srv/hornik/tmp/CRAN_pretest/pmxTools.Rcheck’
* using R Under development (unstable) (2025-08-24 r88696)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 19.1.7 (3+b1)
    Debian flang-new version 19.1.7 (3+b1)
* running under: Debian GNU/Linux forky/sid
* using session charset: UTF-8
* checking for file ‘pmxTools/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘pmxTools’ version ‘1.5’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [5s/6s] NOTE
Maintainer: ‘Justin Wilkins <justin.wilkins@occams.com>’

Found the following (possibly) invalid URLs:
  URL: http://lixoft.com/wp-content/uploads/2016/03/PKPDlibrary.pdf
    From: DESCRIPTION
          man/calc_sd_1cmt.Rd
          man/calc_sd_2cmt.Rd
          man/calc_sd_3cmt.Rd
          man/calc_ss_1cmt.Rd
          man/calc_ss_2cmt.Rd
          man/calc_ss_3cmt.Rd
          man/pmxTools-package.Rd
          inst/doc/pk-curves.html
          README.md
    Status: 404
    Message: Not Found
  URL: http://rich-iannone.github.io/DiagrammeR/docs.html (moved to https://rich-iannone.github.io/DiagrammeR/docs.html)
    From: man/plot_scm.Rd
    Status: 301
    Message: Moved Permanently
  URL: https://travis-ci.org/kestrel99/pmxTools (moved to https://app.travis-ci.com/kestrel99/pmxTools)
    From: README.md
    Status: 301
    Message: Moved Permanently
  URL: https://www.iconplc.com/innovation/nonmem/
    From: man/get_est_table.Rd
          man/get_omega.Rd
          man/get_probinfo.Rd
          man/get_shrinkage.Rd
          man/get_sigma.Rd
          man/get_theta.Rd
          man/plot_nmprogress.Rd
          man/plot_scm.Rd
          man/read_nm.Rd
          man/read_nmcov.Rd
          man/read_nmext.Rd
          man/read_nmtables.Rd
          man/read_scm.Rd
          man/rnm.Rd
          man/sample_omega.Rd
          man/sample_sigma.Rd
          man/sample_uncert.Rd
    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.
* 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 whether package ‘pmxTools’ can be installed ... [6s/6s] 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 ... [1s/1s] OK
* checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
* checking whether the package can be unloaded cleanly ... [1s/1s] OK
* checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
* checking whether the namespace can be unloaded cleanly ... [1s/1s] OK
* checking loading without being on the library search path ... [1s/1s] 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 ... [12s/12s] OK
* checking Rd files ... [0s/0s] 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [3s/3s] 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 ... [8s/8s] OK
* checking PDF version of manual ... [4s/4s] OK
* checking HTML version of manual ... [1s/1s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 NOTE