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

Last updated on 2025-12-20 08:49:12 CET.

Package	ERROR	OK
GPCERF	8	5

Package GPCERF

Current CRAN status: ERROR: 8, OK: 5

Additional issues

donttest

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’ [47s/24s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-08 17:32:44.415647 gimli2 603761 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 2025-12-08 17:32:45.979507 gimli2 603761 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 2025-12-08 17:32:47.273114 gimli2 603761 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 2025-12-08 17:32:48.306992 gimli2 603761 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 2025-12-08 17:32:49.655882 gimli2 603761 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 2025-12-08 17:32:50.877581 gimli2 603761 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 2025-12-08 17:32:52.054721 gimli2 603761 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 2025-12-08 17:32:53.069899 gimli2 603761 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 2025-12-08 17:32:54.520828 gimli2 603761 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 2025-12-08 17:32:55.574835 gimli2 603761 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 2025-12-08 17:32:56.672843 gimli2 603761 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 2025-12-08 17:32:57.796367 gimli2 603761 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 2025-12-08 17:32:59.142388 gimli2 603761 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 2025-12-08 17:33:00.278211 gimli2 603761 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 2025-12-08 17:33:01.21995 gimli2 603761 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-linux-x86_64-debian-clang

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 2025-12-08 17:33:15.87726 gimli2 613988 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 2025-12-08 17:33:29.041041 gimli2 615446 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 2025-12-08 17:33:40.707059 gimli2 618538 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-linux-x86_64-debian-clang

Version: 0.2.4
Check: tests
Result: ERROR Running ‘testthat.R’ [24s/23s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-19 13:23:27.538573 gimli1 1429402 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 2025-12-19 13:23:29.12656 gimli1 1429402 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 2025-12-19 13:23:30.39774 gimli1 1429402 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 2025-12-19 13:23:31.578969 gimli1 1429402 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 2025-12-19 13:23:32.767745 gimli1 1429402 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 2025-12-19 13:23:34.069989 gimli1 1429402 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 2025-12-19 13:23:35.050467 gimli1 1429402 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 2025-12-19 13:23:36.386263 gimli1 1429402 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 2025-12-19 13:23:38.951322 gimli1 1429402 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 2025-12-19 13:23:40.101692 gimli1 1429402 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 2025-12-19 13:23:41.197336 gimli1 1429402 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 2025-12-19 13:23:42.287362 gimli1 1429402 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 2025-12-19 13:23:43.557315 gimli1 1429402 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 2025-12-19 13:23:44.995918 gimli1 1429402 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 2025-12-19 13:23:45.973103 gimli1 1429402 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-linux-x86_64-debian-gcc

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 2025-12-19 13:23:56.308107 gimli1 1448505 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 2025-12-19 13:24:04.802985 gimli1 1452193 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 2025-12-19 13:24:11.448631 gimli1 1460887 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-linux-x86_64-debian-gcc

Version: 0.2.4
Check: tests
Result: ERROR Running ‘testthat.R’ [45s/160s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-17 21:40:09.14858 gannet.stats.ox.ac.uk 1419191 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 21:40:24.078294 gannet.stats.ox.ac.uk 1419191 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 21:40:33.777907 gannet.stats.ox.ac.uk 1419191 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 21:40:45.54489 gannet.stats.ox.ac.uk 1419191 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 21:40:51.230319 gannet.stats.ox.ac.uk 1419191 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 21:40:58.600539 gannet.stats.ox.ac.uk 1419191 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 21:41:07.51543 gannet.stats.ox.ac.uk 1419191 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 21:41:16.50305 gannet.stats.ox.ac.uk 1419191 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 21:41:30.161822 gannet.stats.ox.ac.uk 1419191 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 21:41:37.004733 gannet.stats.ox.ac.uk 1419191 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 21:41:42.955507 gannet.stats.ox.ac.uk 1419191 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 21:41:49.447372 gannet.stats.ox.ac.uk 1419191 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 21:41:56.919091 gannet.stats.ox.ac.uk 1419191 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 21:42:02.680255 gannet.stats.ox.ac.uk 1419191 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 21:42:09.284047 gannet.stats.ox.ac.uk 1419191 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-linux-x86_64-fedora-clang

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 21:43:28.020201 gannet.stats.ox.ac.uk 1433188 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 21:44:27.028708 gannet.stats.ox.ac.uk 1434927 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 21:45:17.357705 gannet.stats.ox.ac.uk 1442220 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-linux-x86_64-fedora-clang

Version: 0.2.4
Check: tests
Result: ERROR Running ‘testthat.R’ [41s/114s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-11 21:32:34.287469 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:32:40.824217 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:32:45.521573 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:32:49.74456 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:32:55.928968 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:33:04.097866 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:33:09.241083 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:33:14.136428 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:33:24.304782 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:33:29.268255 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:33:34.101831 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:33:39.656175 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:33:44.826404 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:33:49.354327 gannet.stats.ox.ac.uk 208070 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 2025-12-11 21:33:55.268609 gannet.stats.ox.ac.uk 208070 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-linux-x86_64-fedora-gcc

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 2025-12-11 21:35:45.752456 gannet.stats.ox.ac.uk 221479 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 2025-12-11 21:36:41.197524 gannet.stats.ox.ac.uk 223336 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 2025-12-11 21:37:28.355464 gannet.stats.ox.ac.uk 229011 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-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' [23s] Running the tests in 'tests/testthat.R' failed. Complete output: > library(testthat) > library(GPCERF) > > test_check("GPCERF") 2025-12-19 07:36:30.227615 CRANWIN2 86912 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 2025-12-19 07:36:31.543588 CRANWIN2 86912 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 2025-12-19 07:36:32.978871 CRANWIN2 86912 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 2025-12-19 07:36:34.062103 CRANWIN2 86912 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 2025-12-19 07:36:34.943632 CRANWIN2 86912 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 2025-12-19 07:36:36.109486 CRANWIN2 86912 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 2025-12-19 07:36:37.198997 CRANWIN2 86912 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 2025-12-19 07:36:38.215173 CRANWIN2 86912 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 2025-12-19 07:36:39.837966 CRANWIN2 86912 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 2025-12-19 07:36:40.916916 CRANWIN2 86912 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 2025-12-19 07:36:42.067341 CRANWIN2 86912 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 2025-12-19 07:36:43.122727 CRANWIN2 86912 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 2025-12-19 07:36:44.562531 CRANWIN2 86912 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 2025-12-19 07:36:45.618777 CRANWIN2 86912 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 2025-12-19 07:36:46.854575 CRANWIN2 86912 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-oldrel-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 2025-12-19 07:36:59.709948 CRANWIN2 103056 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 2025-12-19 07:37:10.116487 CRANWIN2 23580 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 2025-12-19 07:37:19.186744 CRANWIN2 27140 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-oldrel-windows-x86_64