* using log directory ‘/data/gannet/ripley/R/packages/tests-Suggests/MoBPS.Rcheck’ * using R Under development (unstable) (2024-08-23 r87043) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc-14 (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: Fedora Linux 36 (Workstation Edition) * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘MoBPS/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘MoBPS’ version ‘1.6.64’ * checking package namespace information ... OK * checking package dependencies ... NOTE Package suggested but not available for checking: ‘alstructure’ Packages which this enhances but not available for checking: 'miraculix', 'RandomFieldsUtils', 'MoBPSmaps' * 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 ‘MoBPS’ can be installed ... [82s/108s] OK * checking package 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 ... 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 whether startup messages can be suppressed ... 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 ... [122s/147s] OK * checking Rd files ... NOTE checkRd: (-1) creating.phenotypic.transform.Rd:20: Lost braces 20 | trafo <- function(x){ return(x^2)} | ^ * 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 ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking examples ... ERROR Running examples in ‘MoBPS-Ex.R’ failed The error most likely occurred in: > ### Name: get.dendrogram > ### Title: Dendrogram > ### Aliases: get.dendrogram > > ### ** Examples > > data(ex_pop) > get.dendrogram(ex_pop, gen=2) Error in get.dendrogram(ex_pop, gen = 2) : object 'geno_dend' not found Execution halted * checking PDF version of manual ... [17s/26s] OK * checking HTML version of manual ... [7s/13s] OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 ERROR, 2 NOTEs See ‘/data/gannet/ripley/R/packages/tests-Suggests/MoBPS.Rcheck/00check.log’ for details. Command exited with non-zero status 1 Time 5:56.46, 263.78 + 10.86