* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/Rtapas.Rcheck’ * using R Under development (unstable) (2025-03-24 r88042) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3) GNU Fortran (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3) * running under: Fedora Linux 40 (Workstation Edition) * using session charset: UTF-8 * checking for file ‘Rtapas/DESCRIPTION’ ... OK * this is package ‘Rtapas’ version ‘1.2’ * 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 whether package ‘Rtapas’ can be installed ... 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 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 ... 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 ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking examples ... OK * checking examples with --run-donttest ... ERROR Running examples in ‘Rtapas-Ex.R’ failed The error most likely occurred in: > ### Name: link_freq > ### Title: Frequency of host-symbiont association > ### Aliases: link_freq > > ### ** Examples > > ## No test: > data(amph_trem) > N = 10 #for the example, we recommend 1e+4 value > n = 8 > > TAM <- trimHS_maxC(N, am_matrix, n, check.unique = TRUE) > PACO <- paco_ss(TAM, amphipod, trematode, symmetric = TRUE, + ei.correct = "sqrt.D", strat = "parallel", cl = 8) Error in checkNumberOfLocalWorkers(workers) : Attempting to set up 8 localhost parallel workers with only 2 CPU cores available for this R process (per ‘mc.cores’), which could result in a 400% load. The hard limit is set to 300%. Overusing the CPUs has negative impact on the current R process, but also on all other processes of yours and others running on the same machine. See help("parallelly.maxWorkers.localhost", package = "parallelly") for further explanations and how to override the hard limit that triggered this error Calls: paco_ss -> makeClusterPSOCK -> checkNumberOfLocalWorkers Execution halted * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking PDF version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * checking for new files in some other directories ... OK * DONE Status: 1 ERROR See ‘/data/blackswan/ripley/R/packages/tests-devel/Rtapas.Rcheck/00check.log’ for details. Command exited with non-zero status 1 Time 1:36.09, 71.99 + 20.89