• using R Under development (unstable) (2026-07-28 r90311)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 22.1.8 (https://github.com/llvm/llvm-project ca7933e47d3a3451d81e72ac174dcb5aa28b59d1)     flang version 22.1.8 (https://github.com/llvm/llvm-project ca7933e47d3a3451d81e72ac174dcb5aa28b59d1)
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8 * current time: 2026-07-28 12:09:00 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 ... [567s/572s] OK See the install log for details.
• used C++ compiler: ‘clang version 22.1.8 (https://github.com/llvm/llvm-project ca7933e47d3a3451d81e72ac174dcb5aa28b59d1)’
• 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 ... [90s/114s] 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 ... [11s/14s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [90m/49m] ERROR   Running ‘testthat.R’ [90m/49m] 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] -1.768 0.745 -2.22    $ sd : num [1:3] 0.613 0.706 0.752    $ 0.05q : num [1:3] -2.8 -0.38 -3.44    $ 0.95q : num [1:3] -0.798 1.981 -1.053    $ median: num [1:3] -1.758 0.728 -2.21    $ mode : num [1:3] -1.9 0.7 -2.3    - attr(*, "samples")= num [1:10, 1:500] -1.039 -1.266 -2.591 -0.913 3.392 ...   Starting estimation...   iteration = : 1   grad.norm() = 505.319   pflug_sum = 0, max_pflug_sum = 0   ---------------------------   iteration = : 2   grad.norm() = 480.836   pflug_sum = 242274, max_pflug_sum = 242274   ---------------------------   iteration = : 3   grad.norm() = 461.834   pflug_sum = 463837, max_pflug_sum = 463837   ---------------------------   iteration = : 4   grad.norm() = 437.541   pflug_sum = 665438, max_pflug_sum = 665438   ---------------------------   iteration = : 5   grad.norm() = 423.162   pflug_sum = 850281, max_pflug_sum = 850281   ---------------------------   iteration = : 6   grad.norm() = 392.011   pflug_sum = 1.01562e+06, max_pflug_sum = 1.01562e+06   ---------------------------   iteration = : 7   grad.norm() = 345.923   pflug_sum = 1.15061e+06, max_pflug_sum = 1.15061e+06   ---------------------------   iteration = : 8   grad.norm() = 326.852   pflug_sum = 1.26312e+06, max_pflug_sum = 1.26312e+06   ---------------------------   iteration = : 9   grad.norm() = 288.587   pflug_sum = 1.35696e+06, max_pflug_sum = 1.35696e+06   ---------------------------   iteration = : 10   grad.norm() = 251.089   pflug_sum = 1.42891e+06, max_pflug_sum = 1.42891e+06   ---------------------------   Starting posterior sampling...   Posterior sampling done.   Average standard deviation of the posterior W: 0.313424450712541   Use ngme_post_samples() to access posterior samples and ngme_result() to access latent model parameters.   OMP: Warning #96: Cannot form a team with 24 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