CRAN Package Check Results for Package mlsurvlrnrs

Last updated on 2025-12-04 19:50:24 CET.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	0.0.6	6.98	184.89	191.87	OK
r-devel-linux-x86_64-debian-gcc	0.0.6	3.78	147.88	151.66	OK
r-devel-linux-x86_64-fedora-clang	0.0.6	39.00	197.41	236.41	ERROR
r-devel-linux-x86_64-fedora-gcc	0.0.6	32.00	142.49	174.49	ERROR
r-devel-windows-x86_64	0.0.6	8.00	344.00	352.00	OK
r-patched-linux-x86_64	0.0.6	6.60	235.30	241.90	OK
r-release-linux-x86_64	0.0.6	5.67	236.62	242.29	OK
r-release-macos-arm64	0.0.6				OK
r-release-macos-x86_64	0.0.6	6.00	249.00	255.00	OK
r-release-windows-x86_64	0.0.6	8.00	351.00	359.00	OK
r-oldrel-macos-arm64	0.0.6				OK
r-oldrel-macos-x86_64	0.0.6	5.00	276.00	281.00	OK
r-oldrel-windows-x86_64	0.0.6	10.00	480.00	490.00	OK

Check Details

Version: 0.0.6
Check: tests
Result: ERROR Running ‘testthat.R’ [2m/19m] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files > > Sys.setenv("OMP_THREAD_LIMIT" = 2) > Sys.setenv("Ncpu" = 2) > > library(testthat) > library(mlsurvlrnrs) > > test_check("mlsurvlrnrs") CV fold: Fold1 Parameter 'ncores' is ignored for learner 'LearnerSurvCoxPHCox'. CV fold: Fold2 Parameter 'ncores' is ignored for learner 'LearnerSurvCoxPHCox'. CV fold: Fold3 Parameter 'ncores' is ignored for learner 'LearnerSurvCoxPHCox'. CV fold: Fold1 Registering parallel backend using 2 cores. Running initial scoring function 6 times in 2 thread(s)... 31.747 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 5.931 seconds 3) Running FUN 2 times in 2 thread(s)... 4.866 seconds CV fold: Fold2 Registering parallel backend using 2 cores. Running initial scoring function 6 times in 2 thread(s)... 32.83 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 6.473 seconds 3) Running FUN 2 times in 2 thread(s)... 5.452 seconds CV fold: Fold3 Registering parallel backend using 2 cores. Running initial scoring function 6 times in 2 thread(s)... 28.455 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 3.618 seconds 3) Running FUN 2 times in 2 thread(s)... 4.667 seconds CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 25.285 seconds Starting Epoch 1 1) Fitting Gaussian Process... - Could not obtain meaningful lengthscales. 2) Running local optimum search... - Convergence Not Found. Trying again with tighter parameters... - Convergence Not Found. Trying again with tighter parameters... - Convergence Not Found. Trying again with tighter parameters... - Maximum convergence attempts exceeded - process is probably sampling random points. 333.15 seconds 3) Running FUN 2 times in 2 thread(s)... 1.685 seconds CV fold: Fold2 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 25.991 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 105.169 seconds 3) Running FUN 2 times in 2 thread(s)... 2.106 seconds CV fold: Fold3 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 25.851 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 15.689 seconds 3) Running FUN 2 times in 2 thread(s)... 1.552 seconds CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 26.202 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 4.203 seconds 3) Running FUN 2 times in 2 thread(s)... 1.431 seconds CV fold: Fold2 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 23.079 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 2.647 seconds 3) Running FUN 2 times in 2 thread(s)... 3.088 seconds CV fold: Fold3 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 25.149 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 3.263 seconds 3) Running FUN 2 times in 2 thread(s)... 2.259 seconds CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 27.524 seconds Starting Epoch 1 1) Fitting Gaussian Process... Saving _problems/test-surv_xgboost_aft-116.R CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 25.318 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... - Convergence Not Found. Trying again with tighter parameters... 13.762 seconds 3) Running FUN 2 times in 2 thread(s)... 1.563 seconds CV fold: Fold2 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 23.778 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 72.191 seconds 3) Running FUN 2 times in 2 thread(s)... 1.461 seconds CV fold: Fold3 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 19.202 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 39.712 seconds 3) Running FUN 2 times in 2 thread(s)... 1.622 seconds [ FAIL 1 | WARN 0 | SKIP 1 | PASS 14 ] ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • On CRAN (1): 'test-lints.R:10:5' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-surv_xgboost_aft.R:116:5'): test nested cv, bayesian - surv_xgboost_aft ── Error in `if (r == 0) stop("Results from FUN have 0 variance, cannot build GP.")`: missing value where TRUE/FALSE needed Backtrace: ▆ 1. └─surv_xgboost_aft_optimizer$execute() at test-surv_xgboost_aft.R:116:5 2. └─mlexperiments:::.run_cv(self = self, private = private) 3. └─mlexperiments:::.fold_looper(self, private) 4. ├─base::do.call(private$cv_run_model, run_args) 5. └─mlexperiments (local) `<fn>`(train_index = `<int>`, fold_train = `<named list>`, fold_test = `<named list>`) 6. ├─base::do.call(.cv_run_nested_model, args) 7. └─mlexperiments (local) `<fn>`(...) 8. └─hparam_tuner$execute(k = self$k_tuning) 9. └─mlexperiments:::.run_tuning(self = self, private = private, optimizer = optimizer) 10. └─mlexperiments:::.run_optimizer(...) 11. └─optimizer$execute(x = private$x, y = private$y, method_helper = private$method_helper) 12. ├─base::do.call(...) 13. └─mlexperiments (local) `<fn>`(...) 14. ├─base::do.call(ParBayesianOptimization::bayesOpt, args) 15. └─ParBayesianOptimization (local) `<fn>`(...) 16. └─ParBayesianOptimization::addIterations(...) 17. └─ParBayesianOptimization::updateGP(...) 18. └─ParBayesianOptimization:::zeroOneScale(scoreSummary$Score) [ FAIL 1 | WARN 0 | SKIP 1 | PASS 14 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.0.6
Check: tests
Result: ERROR Running ‘testthat.R’ [43s/585s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files > > Sys.setenv("OMP_THREAD_LIMIT" = 2) > Sys.setenv("Ncpu" = 2) > > library(testthat) > library(mlsurvlrnrs) > > test_check("mlsurvlrnrs") CV fold: Fold1 Parameter 'ncores' is ignored for learner 'LearnerSurvCoxPHCox'. CV fold: Fold2 Parameter 'ncores' is ignored for learner 'LearnerSurvCoxPHCox'. CV fold: Fold3 Parameter 'ncores' is ignored for learner 'LearnerSurvCoxPHCox'. CV fold: Fold1 Registering parallel backend using 2 cores. Running initial scoring function 6 times in 2 thread(s)... 36.025 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 5.434 seconds 3) Running FUN 2 times in 2 thread(s)... 4.417 seconds CV fold: Fold2 Registering parallel backend using 2 cores. Running initial scoring function 6 times in 2 thread(s)... 28.817 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 6.187 seconds 3) Running FUN 2 times in 2 thread(s)... 4.532 seconds CV fold: Fold3 Registering parallel backend using 2 cores. Running initial scoring function 6 times in 2 thread(s)... 28.548 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 5.247 seconds 3) Running FUN 2 times in 2 thread(s)... 6.904 seconds CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 20.207 seconds Starting Epoch 1 1) Fitting Gaussian Process... - Could not obtain meaningful lengthscales. 2) Running local optimum search... - Convergence Not Found. Trying again with tighter parameters... - Convergence Not Found. Trying again with tighter parameters... 43.255 seconds 3) Running FUN 2 times in 2 thread(s)... 1.63 seconds CV fold: Fold2 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 21.415 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 59.187 seconds 3) Running FUN 2 times in 2 thread(s)... 1.013 seconds CV fold: Fold3 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 12.37 seconds Starting Epoch 1 1) Fitting Gaussian Process... - Could not obtain meaningful lengthscales. 2) Running local optimum search... 2.154 seconds 3) Running FUN 2 times in 2 thread(s)... 1.1 seconds CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 11.019 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 1.341 seconds 3) Running FUN 2 times in 2 thread(s)... 0.99 seconds CV fold: Fold2 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 15.369 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 1.332 seconds 3) Running FUN 2 times in 2 thread(s)... 0.983 seconds CV fold: Fold3 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 12.043 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 1.333 seconds 3) Running FUN 2 times in 2 thread(s)... 1.132 seconds CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 13.421 seconds Starting Epoch 1 1) Fitting Gaussian Process... Saving _problems/test-surv_xgboost_aft-116.R CV fold: Fold1 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 12.232 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 35.557 seconds 3) Running FUN 2 times in 2 thread(s)... 0.934 seconds CV fold: Fold2 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 9.913 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 30.462 seconds 3) Running FUN 2 times in 2 thread(s)... 1.167 seconds CV fold: Fold3 Number of rows of initialization grid > than 'options("mlexperiments.bayesian.max_init")'... ... reducing initialization grid to 10 rows. Registering parallel backend using 2 cores. Running initial scoring function 10 times in 2 thread(s)... 12.013 seconds Starting Epoch 1 1) Fitting Gaussian Process... 2) Running local optimum search... 31.352 seconds 3) Running FUN 2 times in 2 thread(s)... 0.706 seconds [ FAIL 1 | WARN 0 | SKIP 1 | PASS 14 ] ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • On CRAN (1): 'test-lints.R:10:5' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-surv_xgboost_aft.R:116:5'): test nested cv, bayesian - surv_xgboost_aft ── Error in `if (r == 0) stop("Results from FUN have 0 variance, cannot build GP.")`: missing value where TRUE/FALSE needed Backtrace: ▆ 1. └─surv_xgboost_aft_optimizer$execute() at test-surv_xgboost_aft.R:116:5 2. └─mlexperiments:::.run_cv(self = self, private = private) 3. └─mlexperiments:::.fold_looper(self, private) 4. ├─base::do.call(private$cv_run_model, run_args) 5. └─mlexperiments (local) `<fn>`(train_index = `<int>`, fold_train = `<named list>`, fold_test = `<named list>`) 6. ├─base::do.call(.cv_run_nested_model, args) 7. └─mlexperiments (local) `<fn>`(...) 8. └─hparam_tuner$execute(k = self$k_tuning) 9. └─mlexperiments:::.run_tuning(self = self, private = private, optimizer = optimizer) 10. └─mlexperiments:::.run_optimizer(...) 11. └─optimizer$execute(x = private$x, y = private$y, method_helper = private$method_helper) 12. ├─base::do.call(...) 13. └─mlexperiments (local) `<fn>`(...) 14. ├─base::do.call(ParBayesianOptimization::bayesOpt, args) 15. └─ParBayesianOptimization (local) `<fn>`(...) 16. └─ParBayesianOptimization::addIterations(...) 17. └─ParBayesianOptimization::updateGP(...) 18. └─ParBayesianOptimization:::zeroOneScale(scoreSummary$Score) [ FAIL 1 | WARN 0 | SKIP 1 | PASS 14 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-fedora-gcc