* using log directory ‘/home/hornik/tmp/CRAN_special_noSuggests/MoBPS.Rcheck’
* using R Under development (unstable) (2025-10-28 r88973)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-15 (Debian 15.2.0-4) 15.2.0
    GNU Fortran (Debian 15.2.0-4) 15.2.0
* running under: Debian GNU/Linux forky/sid
* using session charset: UTF-8
* checking for file ‘MoBPS/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘MoBPS’ version ‘1.13.0’
* checking CRAN incoming feasibility ... [5s/7s] NOTE
Maintainer: ‘Torsten Pook <torsten.pook@wur.nl>’

New maintainer:
  Torsten Pook <torsten.pook@wur.nl>
Old maintainer(s):
  Torsten Pook <torsten.pook@uni-goettingen.de>

Suggests or Enhances not in mainstream repositories:
  alstructure, visPedigree, miraculix, RandomFieldsUtils, MoBPSmaps
Availability using Additional_repositories specification:
  alstructure         yes   https://tpook92.github.io/drat/
  visPedigree         yes   https://tpook92.github.io/drat/
  miraculix           yes   https://tpook92.github.io/drat/
  RandomFieldsUtils   yes   https://tpook92.github.io/drat/
  MoBPSmaps           yes   https://tpook92.github.io/drat/
* checking package namespace information ... OK
* checking package dependencies ... INFO
Packages suggested but not available for checking:
  'alstructure', 'visPedigree'
* 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 ‘MoBPS’ can be installed ... [54s/54s] 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 whether startup messages can be suppressed ... [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 ... [63s/64s] OK
* checking Rd files ... [1s/1s] 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [12s/12s] ERROR
Running examples in ‘MoBPS-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: ogc.mobps
> ### Title: Breeding function
> ### Aliases: ogc.mobps
> 
> ### ** Examples
> 
> population <- creating.diploid(nsnp=1000, nindi=100, n.additive = 10)
Both sexes in the cohort. Added _M, _F to cohort names!
Successfully generated cohort: Cohort_1_M
Database position: 1 (gen), 1 (sex), 1 (first), 50 (last).
Successfully generated cohort: Cohort_1_F
Database position: 1 (gen), 2 (sex), 1 (first), 50 (last).
Derive genomic values of founders. 
> population <- breeding.diploid(population, breeding.size=100, selection.size=c(25,25),
+ ogc = TRUE)
No individuals for selection provided (male side). Use last available.
No individuals for selection provided (female side). Use last available.
Start selection procedure.
Selection male size:
Select 25 individuals out of  50.
Selection female size:
Select 25 individuals out of  50.
Warning in breeding.diploid(population, breeding.size = 100, selection.size = c(25,  :
  Optimum genetic contribution only possible if optiSel R-package is installed. Skip OGC! 

Error in breeding.diploid(population, breeding.size = 100, selection.size = c(25,  : 
  object 'contribution' not found
Execution halted
* checking PDF version of manual ... [8s/8s] OK
* checking HTML version of manual ... [4s/4s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 ERROR, 1 NOTE