CRAN Package Check Results for Maintainer ‘Boyu Ren <bren at mgb.org>’

Last updated on 2025-12-24 09:50:09 CET.

Package	ERROR	OK
GPCERF	8	5

Package GPCERF

Current CRAN status: ERROR: 8, OK: 5

Version: 0.2.4
Check: DESCRIPTION meta-information
Result: NOTE Author field differs from that derived from Authors@R Author: ‘Naeem Khoshnevis [aut] (<https://orcid.org/0000-0003-4315-1426>, HUIT), Boyu Ren [aut, cre] (<https://orcid.org/0000-0002-5300-1184>, McLean Hospital), Tanujit Dey [ctb] (<https://orcid.org/0000-0001-5559-211X>, HMS), Danielle Braun [aut] (<https://orcid.org/0000-0002-5177-8598>, HSPH)’ Authors@R: ‘Naeem Khoshnevis [aut] (ORCID: <https://orcid.org/0000-0003-4315-1426>, AFFILIATION: HUIT), Boyu Ren [aut, cre] (ORCID: <https://orcid.org/0000-0002-5300-1184>, AFFILIATION: McLean Hospital), Tanujit Dey [ctb] (ORCID: <https://orcid.org/0000-0001-5559-211X>, AFFILIATION: HMS), Danielle Braun [aut] (ORCID: <https://orcid.org/0000-0002-5177-8598>, AFFILIATION: HSPH)’ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 0.2.4
Check: tests
Result: ERROR Running ‘testthat.R’ [131s/134s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-22 17:35:29.829303 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... Loading required package: nnls Saving _problems/test-compute_deriv_nn-21.R 2025-12-22 17:35:34.109678 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_deriv_weights_gp-17.R 2025-12-22 17:35:37.790682 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_m_sigma-32.R 2025-12-22 17:35:44.299954 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:35:47.908548 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:35:51.436641 gimli2 1827049 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=1834231 on localhost:11582 at 17:35:51.865 2025-12-22 17:35:55.585659 gimli2 1827049 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 4.149 s. 2025-12-22 17:35:55.681507 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:35:59.16841 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:36:02.737651 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_weight_gp-49.R 2025-12-22 17:36:06.961057 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:36:10.565609 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:13.585728 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:36:16.085748 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:16.114923 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:36:19.824885 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:19.860352 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:19.903113 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:19.939092 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:19.968078 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:20.00903 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:20.055442 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:20.09087 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:36:23.905115 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 starting worker pid=1841248 on localhost:11582 at 17:36:24.314 starting worker pid=1841249 on localhost:11582 at 17:36:24.349 2025-12-22 17:36:33.655403 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:36:37.149608 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:37.161491 gimli2 1827049 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 17:36:37.170325 gimli2 1827049 GPCERF find_optimal_nn INFO: Started finding optimal values ... starting worker pid=1845450 on localhost:11582 at 17:36:37.616 2025-12-22 17:36:42.348456 gimli2 1827049 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 5.176 s.} ... 2025-12-22 17:36:42.350995 gimli2 1827049 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=1846668 on localhost:11582 at 17:36:42.801 2025-12-22 17:36:49.093406 gimli2 1827049 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 6.74299999999999 s. 2025-12-22 17:36:49.096303 gimli2 1827049 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ... starting worker pid=1849219 on localhost:11582 at 17:36:49.546 2025-12-22 17:36:55.375616 gimli2 1827049 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 6.279 s. 2025-12-22 17:36:55.37798 gimli2 1827049 GPCERF estimate_cerf_nngp INFO: Done with estimating cerf using nngp approach Wall clock time: 18.216 s. 2025-12-22 17:36:55.386687 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:55.395161 gimli2 1827049 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 17:36:55.421263 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:55.431014 gimli2 1827049 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 17:36:55.502662 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:55.515468 gimli2 1827049 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 17:36:55.538712 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:36:57.87326 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:57.88891 gimli2 1827049 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 17:36:57.903723 gimli2 1827049 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-21 r89216), detected cores: 32 2025-12-22 17:36:57.919029 gimli2 1827049 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 17:36:57.977055 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-estimate_gps-15.R 2025-12-22 17:37:01.726438 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:37:05.319479 gimli2 1827049 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=1853528 on localhost:11582 at 17:37:05.647 2025-12-22 17:37:10.394426 gimli2 1827049 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 5.075 s. 2025-12-22 17:37:10.39697 gimli2 1827049 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ... starting worker pid=1854490 on localhost:11582 at 17:37:10.816 2025-12-22 17:37:16.190782 gimli2 1827049 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 5.794 s. Saving _problems/test-estimate_mean_sd_nn-37.R 2025-12-22 17:37:16.281108 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:37:18.723087 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:37:22.388053 gimli2 1827049 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=1858166 on localhost:11582 at 17:37:22.873 2025-12-22 17:37:27.680605 gimli2 1827049 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 5.292 s. 2025-12-22 17:37:27.742444 gimli2 1827049 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 17:37:31.796539 gimli2 1827049 GPCERF find_optimal_nn INFO: Started finding optimal values ... starting worker pid=1860652 on localhost:11582 at 17:37:32.082 2025-12-22 17:37:37.730375 gimli2 1827049 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 5.931 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 Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.2.4
Check: tests
Result: ERROR Running ‘testthat.R’ [75s/110s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-23 13:24:26.048886 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... Loading required package: nnls Saving _problems/test-compute_deriv_nn-21.R 2025-12-23 13:24:31.25709 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_deriv_weights_gp-17.R 2025-12-23 13:24:35.139713 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_m_sigma-32.R 2025-12-23 13:24:41.325145 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:24:44.721633 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:24:48.517274 gimli1 1117501 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=1135548 on localhost:11372 at 13:24:48.847 2025-12-23 13:24:51.336248 gimli1 1117501 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 2.819 s. 2025-12-23 13:24:51.389535 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:24:54.627087 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:24:58.242441 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_weight_gp-49.R 2025-12-23 13:25:02.333009 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:25:06.228481 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:08.717873 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:25:11.416336 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:11.456015 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:25:14.837698 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:14.869707 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:14.893254 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:14.924941 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:14.952531 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:14.981845 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:15.017291 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:15.054103 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:25:18.866117 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 starting worker pid=1162231 on localhost:11372 at 13:25:19.219 starting worker pid=1162232 on localhost:11372 at 13:25:19.276 2025-12-23 13:25:25.730268 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:25:29.817482 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:29.841824 gimli1 1117501 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-23 13:25:29.849246 gimli1 1117501 GPCERF find_optimal_nn INFO: Started finding optimal values ... starting worker pid=1174520 on localhost:11372 at 13:25:30.294 2025-12-23 13:25:33.318832 gimli1 1117501 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 3.468 s.} ... 2025-12-23 13:25:33.321603 gimli1 1117501 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=1177945 on localhost:11372 at 13:25:33.708 2025-12-23 13:25:36.338597 gimli1 1117501 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 3.017 s. 2025-12-23 13:25:36.342312 gimli1 1117501 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ... starting worker pid=1181429 on localhost:11372 at 13:25:36.614 2025-12-23 13:25:39.800662 gimli1 1117501 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 3.459 s. 2025-12-23 13:25:39.802395 gimli1 1117501 GPCERF estimate_cerf_nngp INFO: Done with estimating cerf using nngp approach Wall clock time: 9.95999999999999 s. 2025-12-23 13:25:39.8096 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:39.825687 gimli1 1117501 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-23 13:25:39.83814 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:39.857236 gimli1 1117501 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-23 13:25:39.900395 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:39.921381 gimli1 1117501 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-23 13:25:39.938646 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:25:42.875596 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:42.897599 gimli1 1117501 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-23 13:25:42.916953 gimli1 1117501 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: hornik, R Under development (unstable) (2025-12-22 r89219), detected cores: 64 2025-12-23 13:25:42.933424 gimli1 1117501 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-23 13:25:43.012627 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-estimate_gps-15.R 2025-12-23 13:25:46.767437 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:25:50.154705 gimli1 1117501 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=1195280 on localhost:11372 at 13:25:50.453 2025-12-23 13:25:52.998559 gimli1 1117501 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 2.84399999999999 s. 2025-12-23 13:25:53.000663 gimli1 1117501 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ... starting worker pid=1199145 on localhost:11372 at 13:25:53.332 2025-12-23 13:25:56.015902 gimli1 1117501 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 3.015 s. Saving _problems/test-estimate_mean_sd_nn-37.R 2025-12-23 13:25:56.08518 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:25:58.636739 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:26:02.654027 gimli1 1117501 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=1213175 on localhost:11372 at 13:26:03.046 2025-12-23 13:26:05.304063 gimli1 1117501 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 2.65000000000001 s. 2025-12-23 13:26:05.338497 gimli1 1117501 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-23 13:26:08.759477 gimli1 1117501 GPCERF find_optimal_nn INFO: Started finding optimal values ... starting worker pid=1221963 on localhost:11372 at 13:26:09.069 2025-12-23 13:26:12.704187 gimli1 1117501 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 3.943 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 Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.2.4
Check: tests
Result: ERROR Running ‘testthat.R’ [146s/479s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-21 17:14:03.923455 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... Loading required package: nnls Saving _problems/test-compute_deriv_nn-21.R 2025-12-21 17:14:20.375395 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_deriv_weights_gp-17.R 2025-12-21 17:14:38.571093 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_m_sigma-32.R 2025-12-21 17:15:01.8909 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:15:18.311083 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:15:32.989228 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=3999837 on localhost:11521 at 17:15:34.241 2025-12-21 17:15:44.512754 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 11.523 s. 2025-12-21 17:15:44.703194 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:15:53.88295 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:16:06.317196 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_weight_gp-49.R 2025-12-21 17:16:19.891044 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:16:30.486801 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:16:43.122546 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:16:53.05197 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:16:53.132591 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:17:09.849059 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:17:09.904713 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:17:09.960141 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:17:10.015242 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:17:10.084562 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:17:10.150124 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:17:10.22412 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:17:10.324969 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:17:27.057343 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 starting worker pid=4014920 on localhost:11521 at 17:17:28.092 starting worker pid=4014919 on localhost:11521 at 17:17:28.297 2025-12-21 17:17:59.84917 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:18:18.806262 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:18:19.26263 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-21 17:18:19.271837 gannet.stats.ox.ac.uk 3986278 GPCERF find_optimal_nn INFO: Started finding optimal values ... starting worker pid=4019974 on localhost:11521 at 17:18:20.777 2025-12-21 17:18:37.610634 gannet.stats.ox.ac.uk 3986278 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 18.335 s.} ... 2025-12-21 17:18:37.621314 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=4021432 on localhost:11521 at 17:18:39.435 2025-12-21 17:18:54.511929 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 16.89 s. 2025-12-21 17:18:54.520722 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ... starting worker pid=4023001 on localhost:11521 at 17:18:55.353 2025-12-21 17:19:12.730582 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 18.21 s. 2025-12-21 17:19:12.738789 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_cerf_nngp INFO: Done with estimating cerf using nngp approach Wall clock time: 53.476 s. 2025-12-21 17:19:12.761729 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:19:12.804733 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-21 17:19:12.887784 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:19:12.920211 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-21 17:19:13.093878 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:19:13.334097 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-21 17:19:14.011354 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:19:23.545686 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:19:23.613 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-21 17:19:23.669314 gannet.stats.ox.ac.uk 3986278 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-21 r89216), detected cores: 24 2025-12-21 17:19:23.70406 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-21 17:19:23.838045 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-estimate_gps-15.R 2025-12-21 17:19:36.364128 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:19:51.67213 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=4028861 on localhost:11521 at 17:19:52.688 2025-12-21 17:20:09.452617 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 17.78 s. 2025-12-21 17:20:09.46382 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ... starting worker pid=4030898 on localhost:11521 at 17:20:10.040 2025-12-21 17:20:24.238665 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 14.775 s. Saving _problems/test-estimate_mean_sd_nn-37.R 2025-12-21 17:20:24.413669 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:20:35.795772 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:20:50.365597 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=4035673 on localhost:11521 at 17:20:51.166 2025-12-21 17:21:05.243493 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 14.878 s. 2025-12-21 17:21:05.412154 gannet.stats.ox.ac.uk 3986278 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-21 17:21:22.098838 gannet.stats.ox.ac.uk 3986278 GPCERF find_optimal_nn INFO: Started finding optimal values ... starting worker pid=4039037 on localhost:11521 at 17:21:22.972 2025-12-21 17:21:42.425644 gannet.stats.ox.ac.uk 3986278 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 20.319 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 Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.2.4
Check: tests
Result: ERROR Running ‘testthat.R’ [139s/261s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-22 21:57:38.556257 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... Loading required package: nnls Saving _problems/test-compute_deriv_nn-21.R 2025-12-22 21:57:47.162173 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_deriv_weights_gp-17.R 2025-12-22 21:57:56.965034 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_m_sigma-32.R 2025-12-22 21:58:10.585884 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 21:58:18.570931 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 21:58:27.161705 gannet.stats.ox.ac.uk 514475 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=518790 on localhost:11101 at 21:58:27.559 2025-12-22 21:58:35.943547 gannet.stats.ox.ac.uk 514475 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 8.78100000000001 s. 2025-12-22 21:58:36.040664 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 21:58:44.035494 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 21:58:52.39717 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_weight_gp-49.R 2025-12-22 21:59:04.146656 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 21:59:13.174246 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 21:59:18.969826 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 21:59:23.577698 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 21:59:23.621475 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 21:59:31.93626 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 21:59:31.99279 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 21:59:32.043366 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 21:59:32.154228 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 21:59:32.217024 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 21:59:32.280203 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 21:59:32.334509 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 21:59:32.396317 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 21:59:39.136753 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 starting worker pid=523941 on localhost:11101 at 21:59:39.651 starting worker pid=523940 on localhost:11101 at 21:59:39.723 2025-12-22 21:59:56.866726 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 22:00:05.735506 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 22:00:05.758069 gannet.stats.ox.ac.uk 514475 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 22:00:05.814984 gannet.stats.ox.ac.uk 514475 GPCERF find_optimal_nn INFO: Started finding optimal values ... starting worker pid=525264 on localhost:11101 at 22:00:06.302 2025-12-22 22:00:13.655185 gannet.stats.ox.ac.uk 514475 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 7.833 s.} ... 2025-12-22 22:00:13.659385 gannet.stats.ox.ac.uk 514475 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=525635 on localhost:11101 at 22:00:14.131 2025-12-22 22:00:21.833248 gannet.stats.ox.ac.uk 514475 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 8.17400000000001 s. 2025-12-22 22:00:21.837238 gannet.stats.ox.ac.uk 514475 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ... starting worker pid=525968 on localhost:11101 at 22:00:22.355 2025-12-22 22:00:31.675673 gannet.stats.ox.ac.uk 514475 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 9.839 s. 2025-12-22 22:00:31.683465 gannet.stats.ox.ac.uk 514475 GPCERF estimate_cerf_nngp INFO: Done with estimating cerf using nngp approach Wall clock time: 25.925 s. 2025-12-22 22:00:31.694416 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 22:00:31.717022 gannet.stats.ox.ac.uk 514475 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 22:00:31.76209 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 22:00:31.786788 gannet.stats.ox.ac.uk 514475 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 22:00:31.846491 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 22:00:31.867239 gannet.stats.ox.ac.uk 514475 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 22:00:31.911947 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 22:00:38.26709 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 22:00:38.291032 gannet.stats.ox.ac.uk 514475 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 22:00:38.335542 gannet.stats.ox.ac.uk 514475 GPCERF log_system_info INFO: System name: Linux, OS type: unix, machine architecture: x86_64, user: ripley, R Under development (unstable) (2025-12-22 r89219), detected cores: 24 2025-12-22 22:00:38.35893 gannet.stats.ox.ac.uk 514475 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 22:00:38.464274 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-estimate_gps-15.R 2025-12-22 22:00:46.056387 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 22:00:53.899512 gannet.stats.ox.ac.uk 514475 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=527663 on localhost:11101 at 22:00:54.510 2025-12-22 22:01:01.947515 gannet.stats.ox.ac.uk 514475 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 8.048 s. 2025-12-22 22:01:01.955532 gannet.stats.ox.ac.uk 514475 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ... starting worker pid=528016 on localhost:11101 at 22:01:02.456 2025-12-22 22:01:10.818244 gannet.stats.ox.ac.uk 514475 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 8.863 s. Saving _problems/test-estimate_mean_sd_nn-37.R 2025-12-22 22:01:10.919308 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 22:01:16.247048 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 22:01:24.185433 gannet.stats.ox.ac.uk 514475 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=529793 on localhost:11101 at 22:01:24.684 2025-12-22 22:01:31.874528 gannet.stats.ox.ac.uk 514475 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 7.68899999999999 s. 2025-12-22 22:01:31.970045 gannet.stats.ox.ac.uk 514475 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 22:01:40.164582 gannet.stats.ox.ac.uk 514475 GPCERF find_optimal_nn INFO: Started finding optimal values ... starting worker pid=530687 on localhost:11101 at 22:01:40.671 2025-12-22 22:01:50.075663 gannet.stats.ox.ac.uk 514475 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 9.90700000000001 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 Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.2.4
Check: tests
Result: ERROR Running 'testthat.R' [17s] Running the tests in 'tests/testthat.R' failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-17 09:17:49.821386 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Loading required package: nnls Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_deriv_nn-8.R 2025-12-17 09:17:51.096294 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_deriv_weights_gp-8.R 2025-12-17 09:17:51.929742 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_m_sigma-12.R 2025-12-17 09:17:52.750785 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_posterior_m_nn-10.R 2025-12-17 09:17:53.536041 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_posterior_sd_nn-10.R 2025-12-17 09:17:54.475887 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_rl_deriv_gp-8.R 2025-12-17 09:17:55.223739 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_rl_deriv_nn-8.R 2025-12-17 09:17:56.004034 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_sd_gp-17.R Saving _problems/test-compute_weight_gp-49.R 2025-12-17 09:17:57.230403 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_cerf_gp-10.R 2025-12-17 09:17:58.024499 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_cerf_nngp-10.R 2025-12-17 09:17:58.827859 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_gps-10.R 2025-12-17 09:17:59.625059 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_mean_sd_nn-10.R 2025-12-17 09:18:00.363278 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_noise_gp-11.R 2025-12-17 09:18:01.151327 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_noise_nn-10.R 2025-12-17 09:18:01.983663 CRANWIN3 21552 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-find_optimal_nn-9.R [ FAIL 16 | WARN 752 | SKIP 0 | PASS 45 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-compute_deriv_nn.R:5:3'): compute_deriv_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_deriv_nn.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_deriv_weights_gp.R:5:3'): compute_deriv_weights_gp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_deriv_weights_gp.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_m_sigma.R:9:4'): compute_m_sigma works as expected! ──── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_m_sigma.R:9:4 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_posterior_m_nn.R:7:3'): compute_posterior_m_nn works as expected. ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_posterior_m_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_posterior_sd_nn.R:7:3'): compute_posterior_sd_nn works as expected. ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_posterior_sd_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_rl_deriv_gp.R:5:3'): compute_rl_deriv_gp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_rl_deriv_gp.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_rl_deriv_nn.R:5:3'): compute_rl_deriv_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_rl_deriv_nn.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_sd_gp.R:14:4'): compute_sd_gp works as expected. ─────── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_sd_gp.R:14:4 2. └─SuperLearner::SuperLearner(...) ── 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 ── Error ('test-estimate_cerf_gp.R:7:3'): estimate_cerf_gp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_cerf_gp.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_cerf_nngp.R:7:3'): estimate_cerf_nngp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_cerf_nngp.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_gps.R:7:3'): estimate_gps works as expected. ────────── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_gps.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_mean_sd_nn.R:7:3'): estimate_mean_sd_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_mean_sd_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_noise_gp.R:8:3'): estimate_noise_gp works as expected ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_noise_gp.R:8:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_noise_nn.R:7:3'): estimate_noise_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_noise_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-find_optimal_nn.R:6:3'): find_optimal_nn works as expected! ──── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-find_optimal_nn.R:6:3 2. └─SuperLearner::SuperLearner(...) [ FAIL 16 | WARN 752 | SKIP 0 | PASS 45 ] Error: ! Test failures. Execution halted Flavor: r-devel-windows-x86_64

Version: 0.2.4
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building 'A-Note-on-Choosing-Hyperparameters.Rmd' using rmarkdown --- finished re-building 'A-Note-on-Choosing-Hyperparameters.Rmd' --- re-building 'Developers-Guide.Rmd' using rmarkdown --- finished re-building 'Developers-Guide.Rmd' --- re-building 'GPCERF.Rmd' using rmarkdown 2025-12-17 09:18:12.002599 CRANWIN3 22520 GPCERF estimate_gps INFO: Started estimating GPS values ... Quitting from GPCERF.Rmd:38-45 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `SuperLearner::SuperLearner()`: ! All algorithms dropped from library --- Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) 2. └─SuperLearner::SuperLearner(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'GPCERF.Rmd' failed with diagnostics: All algorithms dropped from library --- failed re-building 'GPCERF.Rmd' --- re-building 'Nearest-neighbor-Gaussian-Processes.Rmd' using rmarkdown 2025-12-17 09:18:18.88815 CRANWIN3 17560 GPCERF estimate_gps INFO: Started estimating GPS values ... Quitting from Nearest-neighbor-Gaussian-Processes.Rmd:83-92 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `SuperLearner::SuperLearner()`: ! All algorithms dropped from library --- Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) 2. └─SuperLearner::SuperLearner(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Nearest-neighbor-Gaussian-Processes.Rmd' failed with diagnostics: All algorithms dropped from library --- failed re-building 'Nearest-neighbor-Gaussian-Processes.Rmd' --- re-building 'Standard-Gaussian-Processes.Rmd' using rmarkdown 2025-12-17 09:18:25.230098 CRANWIN3 17596 GPCERF estimate_gps INFO: Started estimating GPS values ... Quitting from Standard-Gaussian-Processes.Rmd:83-93 [unnamed-chunk-3] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `SuperLearner::SuperLearner()`: ! All algorithms dropped from library --- Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) 2. └─SuperLearner::SuperLearner(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Standard-Gaussian-Processes.Rmd' failed with diagnostics: All algorithms dropped from library --- failed re-building 'Standard-Gaussian-Processes.Rmd' SUMMARY: processing the following files failed: 'GPCERF.Rmd' 'Nearest-neighbor-Gaussian-Processes.Rmd' 'Standard-Gaussian-Processes.Rmd' Error: Vignette re-building failed. Execution halted Flavor: r-devel-windows-x86_64

Version: 0.2.4
Check: tests
Result: ERROR Running ‘testthat.R’ [27s/36s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-17 05:54:45.971001 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Loading required package: nnls Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_deriv_nn-8.R 2025-12-17 05:54:48.232106 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_deriv_weights_gp-8.R 2025-12-17 05:54:50.31752 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_m_sigma-12.R 2025-12-17 05:54:52.004295 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_posterior_m_nn-10.R 2025-12-17 05:54:53.679858 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_posterior_sd_nn-10.R 2025-12-17 05:54:55.021348 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_rl_deriv_gp-8.R 2025-12-17 05:54:56.416576 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_rl_deriv_nn-8.R 2025-12-17 05:54:58.385254 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_sd_gp-17.R Saving _problems/test-compute_weight_gp-49.R 2025-12-17 05:55:03.527437 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_cerf_gp-10.R 2025-12-17 05:55:05.353983 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_cerf_nngp-10.R 2025-12-17 05:55:06.787716 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_gps-10.R 2025-12-17 05:55:08.519506 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_mean_sd_nn-10.R 2025-12-17 05:55:10.32453 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_noise_gp-11.R 2025-12-17 05:55:12.3509 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_noise_nn-10.R 2025-12-17 05:55:14.213034 gimli2 2175925 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-find_optimal_nn-9.R [ FAIL 16 | WARN 752 | SKIP 0 | PASS 45 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-compute_deriv_nn.R:5:3'): compute_deriv_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_deriv_nn.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_deriv_weights_gp.R:5:3'): compute_deriv_weights_gp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_deriv_weights_gp.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_m_sigma.R:9:4'): compute_m_sigma works as expected! ──── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_m_sigma.R:9:4 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_posterior_m_nn.R:7:3'): compute_posterior_m_nn works as expected. ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_posterior_m_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_posterior_sd_nn.R:7:3'): compute_posterior_sd_nn works as expected. ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_posterior_sd_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_rl_deriv_gp.R:5:3'): compute_rl_deriv_gp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_rl_deriv_gp.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_rl_deriv_nn.R:5:3'): compute_rl_deriv_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_rl_deriv_nn.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_sd_gp.R:14:4'): compute_sd_gp works as expected. ─────── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_sd_gp.R:14:4 2. └─SuperLearner::SuperLearner(...) ── 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 ── Error ('test-estimate_cerf_gp.R:7:3'): estimate_cerf_gp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_cerf_gp.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_cerf_nngp.R:7:3'): estimate_cerf_nngp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_cerf_nngp.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_gps.R:7:3'): estimate_gps works as expected. ────────── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_gps.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_mean_sd_nn.R:7:3'): estimate_mean_sd_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_mean_sd_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_noise_gp.R:8:3'): estimate_noise_gp works as expected ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_noise_gp.R:8:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_noise_nn.R:7:3'): estimate_noise_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_noise_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-find_optimal_nn.R:6:3'): find_optimal_nn works as expected! ──── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-find_optimal_nn.R:6:3 2. └─SuperLearner::SuperLearner(...) [ FAIL 16 | WARN 752 | SKIP 0 | PASS 45 ] Error: ! Test failures. Execution halted Flavor: r-patched-linux-x86_64

Version: 0.2.4
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘A-Note-on-Choosing-Hyperparameters.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘A-Note-on-Choosing-Hyperparameters.Rmd’ --- re-building ‘Developers-Guide.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘Developers-Guide.Rmd’ --- re-building ‘GPCERF.Rmd’ using rmarkdown 2025-12-17 05:55:29.959503 gimli2 2190048 GPCERF estimate_gps INFO: Started estimating GPS values ... Quitting from GPCERF.Rmd:38-45 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `SuperLearner::SuperLearner()`: ! All algorithms dropped from library --- Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) 2. └─SuperLearner::SuperLearner(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'GPCERF.Rmd' failed with diagnostics: All algorithms dropped from library --- failed re-building ‘GPCERF.Rmd’ --- re-building ‘Nearest-neighbor-Gaussian-Processes.Rmd’ using rmarkdown 2025-12-17 05:55:42.593611 gimli2 2191307 GPCERF estimate_gps INFO: Started estimating GPS values ... Quitting from Nearest-neighbor-Gaussian-Processes.Rmd:83-92 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `SuperLearner::SuperLearner()`: ! All algorithms dropped from library --- Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) 2. └─SuperLearner::SuperLearner(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Nearest-neighbor-Gaussian-Processes.Rmd' failed with diagnostics: All algorithms dropped from library --- failed re-building ‘Nearest-neighbor-Gaussian-Processes.Rmd’ --- re-building ‘Standard-Gaussian-Processes.Rmd’ using rmarkdown 2025-12-17 05:55:53.665771 gimli2 2194180 GPCERF estimate_gps INFO: Started estimating GPS values ... Quitting from Standard-Gaussian-Processes.Rmd:83-93 [unnamed-chunk-3] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `SuperLearner::SuperLearner()`: ! All algorithms dropped from library --- Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) 2. └─SuperLearner::SuperLearner(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Standard-Gaussian-Processes.Rmd' failed with diagnostics: All algorithms dropped from library --- failed re-building ‘Standard-Gaussian-Processes.Rmd’ SUMMARY: processing the following files failed: ‘GPCERF.Rmd’ ‘Nearest-neighbor-Gaussian-Processes.Rmd’ ‘Standard-Gaussian-Processes.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-patched-linux-x86_64

Version: 0.2.4
Check: tests
Result: ERROR Running ‘testthat.R’ [27s/34s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-13 05:44:57.923033 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Loading required package: nnls Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_deriv_nn-8.R 2025-12-13 05:45:00.416523 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_deriv_weights_gp-8.R 2025-12-13 05:45:01.93277 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_m_sigma-12.R 2025-12-13 05:45:03.526912 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_posterior_m_nn-10.R 2025-12-13 05:45:05.100099 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_posterior_sd_nn-10.R 2025-12-13 05:45:06.917073 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_rl_deriv_gp-8.R 2025-12-13 05:45:08.314523 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_rl_deriv_nn-8.R 2025-12-13 05:45:09.767577 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-compute_sd_gp-17.R Saving _problems/test-compute_weight_gp-49.R 2025-12-13 05:45:13.986624 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_cerf_gp-10.R 2025-12-13 05:45:15.681828 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_cerf_nngp-10.R 2025-12-13 05:45:17.029967 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_gps-10.R 2025-12-13 05:45:18.675501 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_mean_sd_nn-10.R 2025-12-13 05:45:20.369581 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_noise_gp-11.R 2025-12-13 05:45:22.178111 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-estimate_noise_nn-10.R 2025-12-13 05:45:24.016171 gimli2 260556 GPCERF estimate_gps INFO: Started estimating GPS values ... Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Error in xgboost::xgboost(data = xgmat, objective = objective, nrounds = ntrees, : argument "y" is missing, with no default Saving _problems/test-find_optimal_nn-9.R [ FAIL 16 | WARN 752 | SKIP 0 | PASS 45 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-compute_deriv_nn.R:5:3'): compute_deriv_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_deriv_nn.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_deriv_weights_gp.R:5:3'): compute_deriv_weights_gp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_deriv_weights_gp.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_m_sigma.R:9:4'): compute_m_sigma works as expected! ──── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_m_sigma.R:9:4 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_posterior_m_nn.R:7:3'): compute_posterior_m_nn works as expected. ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_posterior_m_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_posterior_sd_nn.R:7:3'): compute_posterior_sd_nn works as expected. ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_posterior_sd_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_rl_deriv_gp.R:5:3'): compute_rl_deriv_gp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_rl_deriv_gp.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_rl_deriv_nn.R:5:3'): compute_rl_deriv_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_rl_deriv_nn.R:5:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-compute_sd_gp.R:14:4'): compute_sd_gp works as expected. ─────── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-compute_sd_gp.R:14:4 2. └─SuperLearner::SuperLearner(...) ── 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 ── Error ('test-estimate_cerf_gp.R:7:3'): estimate_cerf_gp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_cerf_gp.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_cerf_nngp.R:7:3'): estimate_cerf_nngp works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_cerf_nngp.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_gps.R:7:3'): estimate_gps works as expected. ────────── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_gps.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_mean_sd_nn.R:7:3'): estimate_mean_sd_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_mean_sd_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_noise_gp.R:8:3'): estimate_noise_gp works as expected ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_noise_gp.R:8:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-estimate_noise_nn.R:7:3'): estimate_noise_nn works as expected! ── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-estimate_noise_nn.R:7:3 2. └─SuperLearner::SuperLearner(...) ── Error ('test-find_optimal_nn.R:6:3'): find_optimal_nn works as expected! ──── Error in `SuperLearner::SuperLearner(Y = w_all, X = as.data.frame(cov_mt), SL.library = sl_lib)`: All algorithms dropped from library Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) at test-find_optimal_nn.R:6:3 2. └─SuperLearner::SuperLearner(...) [ FAIL 16 | WARN 752 | SKIP 0 | PASS 45 ] Error: ! Test failures. Execution halted Flavor: r-release-linux-x86_64

Version: 0.2.4
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘A-Note-on-Choosing-Hyperparameters.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘A-Note-on-Choosing-Hyperparameters.Rmd’ --- re-building ‘Developers-Guide.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘Developers-Guide.Rmd’ --- re-building ‘GPCERF.Rmd’ using rmarkdown 2025-12-13 05:45:38.029637 gimli2 274017 GPCERF estimate_gps INFO: Started estimating GPS values ... Quitting from GPCERF.Rmd:38-45 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `SuperLearner::SuperLearner()`: ! All algorithms dropped from library --- Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) 2. └─SuperLearner::SuperLearner(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'GPCERF.Rmd' failed with diagnostics: All algorithms dropped from library --- failed re-building ‘GPCERF.Rmd’ --- re-building ‘Nearest-neighbor-Gaussian-Processes.Rmd’ using rmarkdown 2025-12-13 05:45:48.80051 gimli2 275346 GPCERF estimate_gps INFO: Started estimating GPS values ... Quitting from Nearest-neighbor-Gaussian-Processes.Rmd:83-92 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `SuperLearner::SuperLearner()`: ! All algorithms dropped from library --- Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) 2. └─SuperLearner::SuperLearner(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Nearest-neighbor-Gaussian-Processes.Rmd' failed with diagnostics: All algorithms dropped from library --- failed re-building ‘Nearest-neighbor-Gaussian-Processes.Rmd’ --- re-building ‘Standard-Gaussian-Processes.Rmd’ using rmarkdown 2025-12-13 05:45:58.960181 gimli2 277514 GPCERF estimate_gps INFO: Started estimating GPS values ... Quitting from Standard-Gaussian-Processes.Rmd:83-93 [unnamed-chunk-3] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `SuperLearner::SuperLearner()`: ! All algorithms dropped from library --- Backtrace: ▆ 1. └─GPCERF::estimate_gps(...) 2. └─SuperLearner::SuperLearner(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Standard-Gaussian-Processes.Rmd' failed with diagnostics: All algorithms dropped from library --- failed re-building ‘Standard-Gaussian-Processes.Rmd’ SUMMARY: processing the following files failed: ‘GPCERF.Rmd’ ‘Nearest-neighbor-Gaussian-Processes.Rmd’ ‘Standard-Gaussian-Processes.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-release-linux-x86_64

Version: 0.2.4
Check: tests
Result: ERROR Running 'testthat.R' [215s] Running the tests in 'tests/testthat.R' failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-22 08:23:06.566256 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... Loading required package: nnls Saving _problems/test-compute_deriv_nn-21.R 2025-12-22 08:23:15.492899 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_deriv_weights_gp-17.R 2025-12-22 08:23:24.554266 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_m_sigma-32.R 2025-12-22 08:23:37.301504 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:23:45.428706 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:23:54.316382 CRANWIN2 69140 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=22608 on localhost:11192 at 08:23:54.684 2025-12-22 08:23:58.11715 CRANWIN2 69140 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 3.8 s. 2025-12-22 08:23:58.176058 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:24:06.31885 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:24:14.580268 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-compute_weight_gp-49.R 2025-12-22 08:24:23.171613 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:24:31.542141 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:24:36.710869 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:24:43.632171 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:24:43.653814 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:24:52.340591 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:24:52.356692 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:24:52.373263 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:24:52.389605 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:24:52.406278 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:24:52.42446 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:24:52.443867 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:24:52.463597 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:25:01.123821 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 starting worker pid=28184 on localhost:11192 at 08:25:01.391 starting worker pid=61484 on localhost:11192 at 08:25:01.450 2025-12-22 08:25:10.528568 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:25:18.755773 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:25:18.759444 CRANWIN2 69140 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 08:25:18.829491 CRANWIN2 69140 GPCERF find_optimal_nn INFO: Started finding optimal values ... starting worker pid=72436 on localhost:11192 at 08:25:19.163 2025-12-22 08:25:23.016778 CRANWIN2 69140 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 4.18000000000001 s.} ... 2025-12-22 08:25:23.019182 CRANWIN2 69140 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=43040 on localhost:11192 at 08:25:23.364 2025-12-22 08:25:26.693001 CRANWIN2 69140 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 3.67999999999998 s. 2025-12-22 08:25:26.696422 CRANWIN2 69140 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ... starting worker pid=95980 on localhost:11192 at 08:25:27.063 2025-12-22 08:25:32.009623 CRANWIN2 69140 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 5.31 s. 2025-12-22 08:25:32.013346 CRANWIN2 69140 GPCERF estimate_cerf_nngp INFO: Done with estimating cerf using nngp approach Wall clock time: 13.26 s. 2025-12-22 08:25:32.020252 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:25:32.024354 CRANWIN2 69140 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 08:25:32.045002 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:25:32.049625 CRANWIN2 69140 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 08:25:32.101883 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:25:32.10544 CRANWIN2 69140 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 08:25:32.123366 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:25:39.41773 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:25:39.421272 CRANWIN2 69140 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 08:25:39.437877 CRANWIN2 69140 GPCERF log_system_info INFO: System name: Windows, OS type: windows, machine architecture: x86-64, user: CRAN, R version 4.4.3 (2025-02-28 ucrt), detected cores: 56 2025-12-22 08:25:39.441279 CRANWIN2 69140 GPCERF estimate_cerf_nngp INFO: Working on estimating cerf using nngp approach ... 2025-12-22 08:25:39.490986 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... Saving _problems/test-estimate_gps-15.R 2025-12-22 08:25:47.649425 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:25:56.010984 CRANWIN2 69140 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=26248 on localhost:11192 at 08:25:56.372 2025-12-22 08:26:00.408037 CRANWIN2 69140 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 4.40000000000001 s. 2025-12-22 08:26:00.411704 CRANWIN2 69140 GPCERF estimate_mean_sd_nn INFO: Working on estimating mean and sd using nngp approach ... starting worker pid=45600 on localhost:11192 at 08:26:00.795 2025-12-22 08:26:04.888087 CRANWIN2 69140 GPCERF estimate_mean_sd_nn INFO: Done with estimating mean and sd using nngp approach Wall clock time: 4.47999999999999 s. Saving _problems/test-estimate_mean_sd_nn-37.R 2025-12-22 08:26:04.991636 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:26:11.890476 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:26:19.529144 CRANWIN2 69140 GPCERF estimate_noise_nn INFO: Working on estimating residual error with nngp ... starting worker pid=106376 on localhost:11192 at 08:26:19.857 2025-12-22 08:26:23.395842 CRANWIN2 69140 GPCERF estimate_noise_nn INFO: Done with estimating residual error with nngpWall clock time: 3.86000000000001 s. 2025-12-22 08:26:23.436473 CRANWIN2 69140 GPCERF estimate_gps INFO: Started estimating GPS values ... 2025-12-22 08:26:31.387043 CRANWIN2 69140 GPCERF find_optimal_nn INFO: Started finding optimal values ... starting worker pid=18964 on localhost:11192 at 08:26:31.748 2025-12-22 08:26:36.331655 CRANWIN2 69140 GPCERF find_optimal_nn INFO: Done with finding optimal value.(Wall clock time: 4.94 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 Flavor: r-oldrel-windows-x86_64