* using log directory ‘/data/localhost/ripley/R/packages/tests-clang/ngme2.Rcheck’ * using R Under development (unstable) (2026-09-15 r90540) * using platform: x86_64-pc-linux-gnu * R was compiled by clang version 23.1.1 flang version 23.1.1 * running under: Fedora Linux 44 (Server Edition) * using session charset: UTF-8 * current time: 2026-09-16 21:33:44 UTC * using option ‘--no-stop-on-test-error’ * checking for file ‘ngme2/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘ngme2’ version ‘0.9.8’ * 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 ‘ngme2’ can be installed ... [301s/110s] OK See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/ngme2-00install.html' for details. * used C++ compiler: ‘clang version 23.1.1’ * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ 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 ... [36s/38s] 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 line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK * checking include directives in Makefiles ... OK * checking pragmas in C/C++ headers and code ... OK * checking compilation flags used ... OK * checking compiled code ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [90m/48m] ERROR Running ‘testthat.R’ [90m/48m] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files > > library(testthat) > > test_check("ngme2") Loading required package: ngme2 This is ngme2 of version 0.9.8 - See our homepage: https://davidbolin.github.io/ngme2 for more details. Attaching package: 'ngme2' The following object is masked from 'package:stats': ar List of 6 $ mean : num [1:3] -1.796 0.718 -2.344 $ sd : num [1:3] 0.724 0.739 0.751 $ 0.05q : num [1:3] -2.96 -0.39 -3.52 $ 0.95q : num [1:3] -0.609 1.971 -1.147 $ median: num [1:3] -1.782 0.653 -2.343 $ mode : num [1:3] -1.9 0.5 -2.1 - attr(*, "samples")= num [1:10, 1:500] -1.21 -2.23 -2.14 -2.12 2.62 ... Starting estimation... iteration = : 1 grad.norm() = 507.937 pflug_sum = 0, max_pflug_sum = 0 --------------------------- iteration = : 2 grad.norm() = 492.667 pflug_sum = 248959, max_pflug_sum = 248959 --------------------------- iteration = : 3 grad.norm() = 474.496 pflug_sum = 481652, max_pflug_sum = 481652 --------------------------- iteration = : 4 grad.norm() = 453.345 pflug_sum = 695772, max_pflug_sum = 695772 --------------------------- iteration = : 5 grad.norm() = 423.758 pflug_sum = 886678, max_pflug_sum = 886678 --------------------------- iteration = : 6 grad.norm() = 398.299 pflug_sum = 1.05469e+06, max_pflug_sum = 1.05469e+06 --------------------------- iteration = : 7 grad.norm() = 378.305 pflug_sum = 1.2049e+06, max_pflug_sum = 1.2049e+06 --------------------------- iteration = : 8 grad.norm() = 346.259 pflug_sum = 1.33535e+06, max_pflug_sum = 1.33535e+06 --------------------------- iteration = : 9 grad.norm() = 315.341 pflug_sum = 1.44438e+06, max_pflug_sum = 1.44438e+06 --------------------------- iteration = : 10 grad.norm() = 280.087 pflug_sum = 1.5324e+06, max_pflug_sum = 1.5324e+06 --------------------------- Starting posterior sampling... Posterior sampling done. Average standard deviation of the posterior W: 0.263156177206675 Use ngme_post_samples() to access posterior samples and ngme_result() to access latent model parameters. OMP: Warning #96: Cannot form a team with 28 threads, using 2 instead. OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set). * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * checking HTML version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 ERROR