• using R Under development (unstable) (2026-01-05 r89271)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 21.1.8     flang version 21.1.8
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘GPCERF/DESCRIPTION’ ... OK
• this is package ‘GPCERF’ version ‘0.2.4’
• 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 ‘GPCERF’ can be installed ... [55s/59s] OK See the install log for details.
• used C++ compiler: ‘clang version 21.1.8’
• checking C++ specification ... INFO   specified C++17
• 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 ... [6s/12s] OK
• checking loading without being on the library search path ... OK
• checking whether startup messages can be suppressed ... [6s/10s] 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 ... [30s/49s] 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 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 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 ... [149s/267s] ERROR   Running ‘testthat.R’ [148s/266s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(GPCERF)   >   > test_check("GPCERF")   2026-01-05 09:46:23.709236 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   Loading required package: nnls   Saving _problems/test-compute_deriv_nn-21.R   2026-01-05 09:46:34.697957 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   Saving _problems/test-compute_deriv_weights_gp-17.R   2026-01-05 09:46:42.643006 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   Saving _problems/test-compute_m_sigma-32.R   2026-01-05 09:46:57.969079 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:47:05.557094 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:47:13.347102 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ...   starting worker pid=3922716 on localhost:11855 at 09:47:13.833   2026-01-05 09:47:21.765285 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 8.41800000000001 s.   2026-01-05 09:47:21.932159 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:47:30.215089 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:47:38.425941 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   Saving _problems/test-compute_weight_gp-49.R   2026-01-05 09:47:47.025972 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:47:54.951175 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:48:04.057666 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:48:08.966644 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:48:09.012892 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:48:17.531778 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:48:17.621188 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:48:17.699775 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:48:17.797599 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:48:17.885784 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:48:17.996089 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:48:18.048639 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:48:18.132452 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:48:27.06988 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   starting worker pid=3928157 on localhost:11855 at 09:48:27.903   starting worker pid=3928159 on localhost:11855 at 09:48:28.020   2026-01-05 09:48:44.310732 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:48:51.770049 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:48:51.797215 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ...   2026-01-05 09:48:51.814903 gannet.stats.ox.ac.uk 3920913 GPCERF find_optimal_nn INFO: Started finding optimal values ...   starting worker pid=3930093 on localhost:11855 at 09:48:52.485   2026-01-05 09:49:02.01143 gannet.stats.ox.ac.uk 3920913 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 10.189 s.} ...   2026-01-05 09:49:02.022075 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ...   starting worker pid=3930753 on localhost:11855 at 09:49:02.756   2026-01-05 09:49:11.746874 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 9.72499999999999 s.   2026-01-05 09:49:11.7516 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ...   starting worker pid=3931201 on localhost:11855 at 09:49:12.389   2026-01-05 09:49:19.912603 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 8.16 s.   2026-01-05 09:49:19.919873 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_cerf_nngp INFO: Done with estimating cerf using nngp approach Wall clock time: 28.123 s.   2026-01-05 09:49:19.937478 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:49:19.976138 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ...   2026-01-05 09:49:20.038899 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:49:20.064098 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ...   2026-01-05 09:49:20.267375 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:49:20.293799 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ...   2026-01-05 09:49:20.343469 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:49:26.151195 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:49:26.181562 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ...   2026-01-05 09:49:26.20961 gannet.stats.ox.ac.uk 3920913 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2026-01-05 r89271), detected cores: 24   2026-01-05 09:49:26.230101 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ...   2026-01-05 09:49:26.358172 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   Saving _problems/test-estimate_gps-15.R   2026-01-05 09:49:36.310678 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:49:43.297617 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ...   starting worker pid=3932155 on localhost:11855 at 09:49:43.831   2026-01-05 09:49:52.963407 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 9.66499999999999 s.   2026-01-05 09:49:52.967907 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ...   starting worker pid=3932443 on localhost:11855 at 09:49:53.533   2026-01-05 09:50:02.254054 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 9.286 s.   Saving _problems/test-estimate_mean_sd_nn-37.R   2026-01-05 09:50:02.362058 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:50:07.716729 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:50:15.84552 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ...   starting worker pid=3934311 on localhost:11855 at 09:50:16.452   2026-01-05 09:50:23.208552 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 7.363 s.   2026-01-05 09:50:23.265082 gannet.stats.ox.ac.uk 3920913 GPCERF estimate_gps INFO: Started estimating GPS values ...   2026-01-05 09:50:30.776981 gannet.stats.ox.ac.uk 3920913 GPCERF find_optimal_nn INFO: Started finding optimal values ...   starting worker pid=3935002 on localhost:11855 at 09:50:31.266   2026-01-05 09:50:41.025531 gannet.stats.ox.ac.uk 3920913 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 10.244 s.} ...   [ FAIL 6 | WARN 2 | SKIP 0 | PASS 101 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test-compute_deriv_nn.R:21:3'): compute_deriv_nn works as expected! ──   Expected `deriv_val[1, 1]` to equal 1.558466.   Differences:     `actual`: -1.0   `expected`: 1.6      ── Failure ('test-compute_deriv_weights_gp.R:17:3'): compute_deriv_weights_gp works as expected! ──   Expected `weights[37]` to equal 3.307249e-05.   Differences:     `actual`: -0.00011   `expected`: 0.00003      ── Failure ('test-compute_m_sigma.R:32:4'): compute_m_sigma works as expected! ──   Expected `gp_cerf[10]` to equal 2.105425.   Differences:     `actual`: -6.1   `expected`: 2.1      ── Failure ('test-compute_weight_gp.R:49:3'): multiplication works ─────────────   Expected `weight$weight[28]` to equal 0.0002182767.   Differences:     `actual`: 0.00000   `expected`: 0.00022      ── Failure ('test-estimate_gps.R:15:3'): estimate_gps works as expected. ───────   Expected `gps_m$gps[4, 1]` to equal 8.74310154.   Differences:     `actual`: 7.3   `expected`: 8.7      ── Failure ('test-estimate_mean_sd_nn.R:37:3'): estimate_mean_sd_nn works as expected! ──   Expected `val[10]` to equal 5.031225.   Differences:     `actual`: 5.067   `expected`: 5.031         [ FAIL 6 | WARN 2 | SKIP 0 | PASS 101 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [131s/313s] OK
• checking PDF version of manual ... [8s/12s] 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