Genentech / jmpost

https://genentech.github.io/jmpost/
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fix brms test #420

Closed gravesti closed 2 months ago

gravesti commented 2 months ago
github-actions[bot] commented 2 months ago

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Code Coverage Summary

Filename                           Stmts    Miss  Cover    Missing
-------------------------------  -------  ------  -------  --------------------------------
R/brier_score.R                      167       0  100.00%
R/DataJoint.R                         76       2  97.37%   264, 270
R/DataLongitudinal.R                 119       1  99.16%   244
R/DataSubject.R                       85       1  98.82%   142
R/DataSurvival.R                      98       0  100.00%
R/defaults.R                          10       6  40.00%   18-57, 84
R/generics.R                          33       4  87.88%   52, 382, 402, 457
R/Grid.R                              27       1  96.30%   173
R/GridEven.R                          32       0  100.00%
R/GridEvent.R                         22       0  100.00%
R/GridFixed.R                         30       0  100.00%
R/GridGrouped.R                       52       0  100.00%
R/GridManual.R                        23       3  86.96%   78-80
R/GridObserved.R                      20       0  100.00%
R/GridPopulation.R                    31       4  87.10%   61, 69-71
R/GridPrediction.R                    36       6  83.33%   83, 91-95
R/JointModel.R                       129      10  92.25%   148-153, 203, 207, 249, 295, 301
R/JointModelSamples.R                 66       0  100.00%
R/link_generics.R                     16       4  75.00%   59, 76, 91, 106
R/Link.R                              62       4  93.55%   200-203
R/LinkComponent.R                     19       3  84.21%   88, 120-121
R/LongitudinalClaretBruno.R           90       6  93.33%   168-172, 187
R/LongitudinalGSF.R                   95       0  100.00%
R/LongitudinalModel.R                 19       0  100.00%
R/LongitudinalQuantities.R            71       0  100.00%
R/LongitudinalRandomSlope.R           44       5  88.64%   102-106
R/LongitudinalSteinFojo.R             86       5  94.19%   159-163
R/Parameter.R                         14       0  100.00%
R/ParameterList.R                     42       1  97.62%   184
R/Prior.R                            254       6  97.64%   507, 651-665
R/Promise.R                           25       0  100.00%
R/Quantities.R                        60       0  100.00%
R/QuantityGeneratorPopulation.R       22       0  100.00%
R/QuantityGeneratorPrediction.R       48       0  100.00%
R/QuantityGeneratorSubject.R          19       0  100.00%
R/settings.R                          12      12  0.00%    55-69
R/SimGroup.R                           5       0  100.00%
R/SimJointData.R                      72       1  98.61%   103
R/SimLongitudinal.R                    5       2  60.00%   22, 40
R/SimLongitudinalClaretBruno.R        74       0  100.00%
R/SimLongitudinalGSF.R                80       0  100.00%
R/SimLongitudinalRandomSlope.R        42       0  100.00%
R/SimLongitudinalSteinFojo.R          69       0  100.00%
R/SimSurvival.R                      116       0  100.00%
R/StanModel.R                         15       0  100.00%
R/StanModule.R                       176       6  96.59%   192-193, 235, 246, 383, 411
R/SurvivalExponential.R               10       0  100.00%
R/SurvivalGamma.R                     13       0  100.00%
R/SurvivalLoglogistic.R               11       0  100.00%
R/SurvivalModel.R                     19       0  100.00%
R/SurvivalQuantities.R               170       1  99.41%   125
R/SurvivalWeibullPH.R                 13       0  100.00%
R/utilities.R                        144       2  98.61%   13, 335
R/zzz.R                               29      26  10.34%   4-8, 10-31, 38-47
TOTAL                               3117     122  96.09%

Diff against main

Filename      Stmts    Miss  Cover
----------  -------  ------  --------
TOTAL             0       0  +100.00%

Results for commit: 3b72e73e2182d33a22736b9e9ca833e95ed643b7

Minimum allowed coverage is 80%

:recycle: This comment has been updated with latest results

github-actions[bot] commented 2 months ago

Unit Tests Summary

    1 files    178 suites   6m 1s :stopwatch:   156 tests   144 :white_check_mark: 12 :zzz: 0 :x: 1 091 runs  1 078 :white_check_mark: 13 :zzz: 0 :x:

Results for commit 3b72e73e.

:recycle: This comment has been updated with latest results.

github-actions[bot] commented 2 months ago

Unit Test Performance Difference

Test Suite $Status$ Time on main $±Time$ $±Tests$ $±Skipped$ $±Failures$ $±Errors$
JointModelSamples 💔 $8.19$ $+22.14$ $0$ $-1$ $0$ $0$
compile 💚 $6.88$ $-2.44$ $0$ $0$ $0$ $0$
extract_quantities 💚 $8.08$ $-6.73$ $0$ $0$ $0$ $0$
misc_models 💚 $11.47$ $-4.33$ $0$ $0$ $0$ $0$
model_multi_chain 💚 $41.63$ $-41.52$ $0$ $0$ $0$ $0$
Additional test case details | Test Suite | $Status$ | Time on `main` | $±Time$ | Test Case | |:-----|:----:|:----:|:----:|:-----| | Grid | 💚 | $106.79$ | $-59.07$ | Grid_objects_work_with_QuantityGenerator_and_QuantityCollapser | | GridPrediction | 💔 | $115.77$ | $+10.31$ | GridPrediction_works_as_expected_for_Survival_models | | JointModelSamples | 💔 | $8.19$ | $+22.14$ | print_works_as_expected_for_JointModelSamples | | LongitudinalClaretBruno | 💚 | $1638.21$ | $-1632.02$ | LongitudinalClaretBruno_works_as_expected_with_default_arguments | | LongitudinalGSF | 💚 | $690.47$ | $-683.28$ | LongitudinalGSF_works_as_expected_with_default_arguments | | LongitudinalQuantiles | 💚 | $41.73$ | $-35.58$ | Test_that_LongitudinalQuantities_works_as_expected | | LongitudinalRandomSlope | 💚 | $53.13$ | $-29.41$ | Print_method_for_LongitudinalRandomSlope_works_as_expected | | LongitudinalSteinFojo | 💚 | $1362.73$ | $-1355.23$ | LongitudinalSteinFojo_works_as_expected_with_default_arguments | | SurvivalExponential | 💚 | $36.46$ | $-34.88$ | Can_load_and_compile_SurvivalExponential_model | | SurvivalGamma | 💚 | $190.60$ | $-189.17$ | Print_method_for_SurvivalGamma_works_as_expected | | SurvivalLoglogistic | 💚 | $27.80$ | $-26.25$ | Can_load_and_compile_SurvivalLogLogistic_model | | SurvivalQuantities | 💚 | $94.84$ | $-92.31$ | SurvivalQuantities_and_autoplot.SurvivalQuantities_works_as_expected | | SurvivalWeibullPH | 💚 | $14.66$ | $-13.27$ | Print_method_for_SurvivalWeibullPH_works_as_expected | | brierScore | 💔 | $14.47$ | $+20.67$ | brierScore_SurvivalQuantities_returns_same_results_as_survreg | | brms_compare | 💚 | $170.83$ | $-170.75$ | jmpost_and_brms_get_similar_loo_for_longitudinal_models | | compile | 💚 | $6.88$ | $-2.44$ | compileStanModel_doesn_t_error_if_the_directory_doesn_t_exist | | extract_quantities | 💚 | $8.08$ | $-6.73$ | extract_quantities_works_as_expected | | misc_models | 💚 | $11.47$ | $-4.33$ | Longitudinal_Model_doesn_t_print_sampler_rejection_messages | | model_multi_chain | 💚 | $41.63$ | $-41.52$ | Can_recover_known_distribution_parameters_from_random_slope_model_when_using_multiple_chains | | stan_functions | 💚 | $33.97$ | $-4.74$ | GSF_SLD_function_works_as_expected |

Results for commit 1d3a62441fa6658c57ee7403f127303883c57ede

♻️ This comment has been updated with latest results.