* using log directory ‘/home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/DNAmixturesLite.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-14 (Debian 14.2.0-19) 14.2.0
    GNU Fortran (Debian 14.2.0-19) 14.2.0
* running under: Debian GNU/Linux 13 (trixie)
* using session charset: UTF-8
* checking for file ‘DNAmixturesLite/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DNAmixturesLite’ version ‘0.0-1’
* package encoding: UTF-8
* 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 serialization versions ... OK
* checking whether package ‘DNAmixturesLite’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-release-linux-x86_64/DNAmixturesLite-00install.html' for details.
* 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 ... [3s/3s] OK
* checking whether the package can be loaded with stated dependencies ... [3s/4s] OK
* checking whether the package can be unloaded cleanly ... [3s/3s] OK
* checking whether the namespace can be loaded with stated dependencies ... [3s/3s] OK
* checking whether the namespace can be unloaded cleanly ... [3s/4s] OK
* checking loading without being on the library search path ... [3s/4s] 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 ... [20s/26s] OK
* checking Rd files ... [1s/1s] NOTE
checkRd: (-1) setCPT.O.Rd:85: Lost braces; missing escapes or markup?
    85 | statespace {0,1,2}, which this is *not* checked anywhere. Thus, if
       |            ^
* 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 ... [0s/1s] OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [54s/68s] OK
Examples with CPU (user + system) or elapsed time > 5s
                          user system elapsed
qqpeak                  11.414  0.072  14.057
prequential.score       10.564  0.013  14.047
DNAmixturesLite-package  6.373  0.035   7.355
boxplot.DNAmixture       5.481  0.036   6.888
varEst                   5.333  0.016   6.161
map.genotypes            5.111  0.059   7.098
* checking PDF version of manual ... [7s/10s] OK
* checking HTML version of manual ... [2s/4s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 1 NOTE