Last updated on 2025-12-24 05:51:44 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.2.4 | 27.52 | 338.06 | 365.58 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.2.4 | 16.81 | 210.06 | 226.87 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.2.4 | 61.00 | 451.40 | 512.40 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.2.4 | 49.00 | 454.36 | 503.36 | ERROR | |
| r-devel-windows-x86_64 | 0.2.4 | 35.00 | 164.00 | 199.00 | ERROR | |
| r-patched-linux-x86_64 | 0.2.4 | 27.45 | 147.16 | 174.61 | ERROR | |
| r-release-linux-x86_64 | 0.2.4 | 25.96 | 146.59 | 172.55 | ERROR | |
| r-release-macos-arm64 | 0.2.4 | OK | ||||
| r-release-macos-x86_64 | 0.2.4 | 17.00 | 423.00 | 440.00 | OK | |
| r-release-windows-x86_64 | 0.2.4 | 36.00 | 473.00 | 509.00 | OK | |
| r-oldrel-macos-arm64 | 0.2.4 | OK | ||||
| r-oldrel-macos-x86_64 | 0.2.4 | 20.00 | 377.00 | 397.00 | OK | |
| r-oldrel-windows-x86_64 | 0.2.4 | 42.00 | 554.00 | 596.00 | ERROR |
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