* using log directory ‘/srv/hornik/tmp/CRAN_pretest/MethComp.Rcheck’
* using R Under development (unstable) (2024-10-18 r87246)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 18.1.8 (9)
    Debian flang-new version 18.1.8 (9)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘MethComp/DESCRIPTION’ ... OK
* this is package ‘MethComp’ version ‘1.30.2’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [4s/7s] NOTE
Maintainer: ‘Claus Thorn Ekstrøm <ekstrom@sund.ku.dk>’

Found the following (possibly) invalid URLs:
  URL: http://BendixCarstensen.com/MethComp (moved to http://bendixcarstensen.com/MethComp/)
    From: man/DA.reg.Rd
          man/DA2y.Rd
          man/y2DA.Rd
    Status: 301
    Message: Moved Permanently
  URL: http://www.bepress.com/ijb/vol4/iss1/16 (moved to https://bepress.com)
    From: man/BA.est.Rd
    Status: 301
    Message: Moved Permanently
  URL: http://www.epi.unimelb.edu.au/about/staff/gurrin-lyle (moved to https://mspgh.unimelb.edu.au/centres-institutes/centre-for-epidemiology-and-biostatistics)
    From: man/MCmcmc.Rd
          man/Meth.sim.Rd
    Status: 301
    Message: Moved Permanently
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 ‘MethComp’ can be installed ... [3s/3s] OK
* checking package directory ... OK
* checking for future file timestamps ... 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 ... [0s/0s] OK
* checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the package can be unloaded cleanly ... [0s/0s] OK
* checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
* checking loading without being on the library search path ... [0s/0s] 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 ... [6s/6s] NOTE
Found if() conditions comparing class() to string:
File ‘MethComp/R/bothlines.R’: if (class(x) == "lm") ...
Use inherits() (or maybe is()) instead.
* checking Rd files ... [0s/0s] NOTE
checkRd: (-1) CardOutput.Rd:19: Escaped LaTeX specials: \&
checkRd: (-1) cardiac.Rd:17: Escaped LaTeX specials: \&
checkRd: (-1) glucose.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) plvol.Rd:16: Escaped LaTeX specials: \&
checkRd: (-1) sbp.Rd:18: Escaped LaTeX specials: \&
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... WARNING
Missing link or links in Rd file 'pairs.Rd':
  ‘[coda]{xyplot}’ ‘[coda]{densityplot}’

See section 'Cross-references' in the 'Writing R Extensions' manual.

Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
  pairs.Rd: lattice
  trace.MCmcmc.Rd: lattice
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
* 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 ... [0s/0s] OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [19s/19s] OK
* checking PDF version of manual ... [4s/3s] 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 WARNING, 3 NOTEs