From d4cb5979e3fd02296be6b1db0e14262ab25f2816 Mon Sep 17 00:00:00 2001 From: somu15 Date: Tue, 1 Aug 2023 16:16:17 -0600 Subject: [PATCH] valgrind possible fix #25078 --- .../test/include/reporters/TestLikelihood.h | 9 + .../test/src/reporters/TestLikelihood.C | 15 +- .../gaussian_derived/gold/extremevalue.json | 13 +- .../gold/likelihood_scalar.json | 13 +- .../gold/loglikelihood_scalar.json | 13 +- .../gold/truncatedgaussian.json | 13 +- .../tests/likelihoods/gaussian_derived/main.i | 1 + .../test/tests/samplers/mcmc/confg.csv | 8 +- .../test/tests/samplers/mcmc/exp_0_05.csv | 8 +- .../tests/samplers/mcmc/gold/des_5prop.json | 420 +--------- .../mcmc/gold/des_5prop_parallel.json | 735 ------------------ .../samplers/mcmc/gold/des_5prop_var.json | 420 +--------- .../tests/samplers/mcmc/gold/imh_5prop.json | 428 +--------- .../tests/samplers/mcmc/gold/mcmc_base.json | 182 +---- .../samplers/mcmc/gold/mcmc_base_bounds.json | 182 +---- .../tests/samplers/mcmc/gold/ss_5prop.json | 428 +--------- .../test/tests/samplers/mcmc/tests | 32 +- 17 files changed, 186 insertions(+), 2734 deletions(-) delete mode 100644 modules/stochastic_tools/test/tests/samplers/mcmc/gold/des_5prop_parallel.json diff --git a/modules/stochastic_tools/test/include/reporters/TestLikelihood.h b/modules/stochastic_tools/test/include/reporters/TestLikelihood.h index a535a41c023c..418e34f9cbf6 100644 --- a/modules/stochastic_tools/test/include/reporters/TestLikelihood.h +++ b/modules/stochastic_tools/test/include/reporters/TestLikelihood.h @@ -35,4 +35,13 @@ class TestLikelihood : public GeneralReporter, public LikelihoodInterface /// model prediction values const std::vector & _model_pred; + + /// Transfer the right outputs to the file + std::vector & _model_pred_required; + + /// The MCMC sampler + Sampler & _sampler; + + /// Communicator that was split based on samples that have rows + libMesh::Parallel::Communicator & _local_comm; }; diff --git a/modules/stochastic_tools/test/src/reporters/TestLikelihood.C b/modules/stochastic_tools/test/src/reporters/TestLikelihood.C index fe470c9ee38a..7835a080c59b 100644 --- a/modules/stochastic_tools/test/src/reporters/TestLikelihood.C +++ b/modules/stochastic_tools/test/src/reporters/TestLikelihood.C @@ -8,6 +8,7 @@ //* https://www.gnu.org/licenses/lgpl-2.1.html #include "TestLikelihood.h" +#include "Sampler.h" registerMooseObject("StochasticToolsTestApp", TestLikelihood); @@ -21,6 +22,11 @@ TestLikelihood::validParams() "function", "function", "Value of the density or mass function."); params.addRequiredParam>("likelihoods", "Names of likelihoods."); params.addRequiredParam("model_pred", "Reporter with the model predictions."); + params.addParam( + "model_pred_required", + "model_pred_required", + "Modified value of the model output from this reporter class."); + params.addRequiredParam("sampler", "The sampler object."); return params; } @@ -28,7 +34,10 @@ TestLikelihood::TestLikelihood(const InputParameters & parameters) : GeneralReporter(parameters), LikelihoodInterface(parameters), _function(declareValue>("function")), - _model_pred(getReporterValue>("model_pred")) + _model_pred(getReporterValue>("model_pred", REPORTER_MODE_DISTRIBUTED)), + _model_pred_required(declareValue>("model_pred_required")), + _sampler(getSampler("sampler")), + _local_comm(_sampler.getLocalComm()) { for (const UserObjectName & name : getParam>("likelihoods")) _likelihoods.push_back(getLikelihoodFunctionByName(name)); @@ -39,6 +48,8 @@ TestLikelihood::TestLikelihood(const InputParameters & parameters) void TestLikelihood::execute() { + _model_pred_required = _model_pred; + _local_comm.allgather(_model_pred_required); for (unsigned i = 0; i < _function.size(); ++i) - _function[i] = _likelihoods[i]->function(_model_pred); + _function[i] = _likelihoods[i]->function(_model_pred_required); } diff --git a/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/extremevalue.json b/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/extremevalue.json index 3facd60b4b10..6e29bd3aa30f 100644 --- a/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/extremevalue.json +++ b/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/extremevalue.json @@ -22,6 +22,9 @@ "values": { "function": { "type": "std::vector" + }, + "model_pred_required": { + "type": "std::vector" } } }, @@ -49,7 +52,8 @@ "likelihoodtest": { "function": [ 0.0 - ] + ], + "model_pred_required": [] }, "noise_specified": { "noise_specified": 0.2 @@ -70,7 +74,12 @@ }, "likelihoodtest": { "function": [ - -13.226275095227445 + 1.6266368748117197 + ], + "model_pred_required": [ + -0.5769720319127907, + 0.4873549495108542, + -0.6411786542848692 ] }, "noise_specified": { diff --git a/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/likelihood_scalar.json b/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/likelihood_scalar.json index c74d871b37aa..3d402c209a6d 100644 --- a/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/likelihood_scalar.json +++ b/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/likelihood_scalar.json @@ -22,6 +22,9 @@ "values": { "function": { "type": "std::vector" + }, + "model_pred_required": { + "type": "std::vector" } } }, @@ -49,7 +52,8 @@ "likelihoodtest": { "function": [ 0.0 - ] + ], + "model_pred_required": [] }, "noise_specified": { "noise_specified": 0.2 @@ -70,7 +74,12 @@ }, "likelihoodtest": { "function": [ - 0.09019318612685807 + 6.453480006168816 + ], + "model_pred_required": [ + -0.5769720319127907, + 0.4873549495108542, + -0.6411786542848692 ] }, "noise_specified": { diff --git a/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/loglikelihood_scalar.json b/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/loglikelihood_scalar.json index 3b6d3fb175e9..0a9d6b591cc1 100644 --- a/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/loglikelihood_scalar.json +++ b/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/loglikelihood_scalar.json @@ -22,6 +22,9 @@ "values": { "function": { "type": "std::vector" + }, + "model_pred_required": { + "type": "std::vector" } } }, @@ -49,7 +52,8 @@ "likelihoodtest": { "function": [ 0.0 - ] + ], + "model_pred_required": [] }, "noise_specified": { "noise_specified": 0.2 @@ -70,7 +74,12 @@ }, "likelihoodtest": { "function": [ - -2.4058013965978287 + 1.8646195211506778 + ], + "model_pred_required": [ + -0.5769720319127907, + 0.4873549495108542, + -0.6411786542848692 ] }, "noise_specified": { diff --git a/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/truncatedgaussian.json b/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/truncatedgaussian.json index c6621615b97a..acf1b1dd218f 100644 --- a/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/truncatedgaussian.json +++ b/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/gold/truncatedgaussian.json @@ -22,6 +22,9 @@ "values": { "function": { "type": "std::vector" + }, + "model_pred_required": { + "type": "std::vector" } } }, @@ -49,7 +52,8 @@ "likelihoodtest": { "function": [ 0.0 - ] + ], + "model_pred_required": [] }, "noise_specified": { "noise_specified": 0.2 @@ -70,7 +74,12 @@ }, "likelihoodtest": { "function": [ - -2.3832432847464218 + 1.9242540625981073 + ], + "model_pred_required": [ + -0.5769720319127907, + 0.4873549495108542, + -0.6411786542848692 ] }, "noise_specified": { diff --git a/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/main.i b/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/main.i index 5112ad5fa695..ff1614f029c2 100644 --- a/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/main.i +++ b/modules/stochastic_tools/test/tests/likelihoods/gaussian_derived/main.i @@ -56,6 +56,7 @@ type = TestLikelihood likelihoods = 'gaussian' model_pred = constant/reporter_transfer:average:value + sampler = sample [] [] diff --git a/modules/stochastic_tools/test/tests/samplers/mcmc/confg.csv b/modules/stochastic_tools/test/tests/samplers/mcmc/confg.csv index 3a0941caacb0..204ea154a775 100644 --- a/modules/stochastic_tools/test/tests/samplers/mcmc/confg.csv +++ b/modules/stochastic_tools/test/tests/samplers/mcmc/confg.csv @@ -1,8 +1,2 @@ 1.0 -2.0 -3.0 -4.0 -5.0 -6.0 -7.0 -8.0 \ No newline at end of file +2.0 \ No newline at end of file diff --git a/modules/stochastic_tools/test/tests/samplers/mcmc/exp_0_05.csv b/modules/stochastic_tools/test/tests/samplers/mcmc/exp_0_05.csv index d3a142bb8f2e..645ea9ae1a9c 100644 --- a/modules/stochastic_tools/test/tests/samplers/mcmc/exp_0_05.csv +++ b/modules/stochastic_tools/test/tests/samplers/mcmc/exp_0_05.csv @@ -1,8 +1,2 @@ -0.6906555, --0.48597421, --0.3830987, --0.35797811, --0.1734234, --0.14960162, --0.07303159, --0.15606178 \ No newline at end of file +-0.48597421, \ No newline at end of file diff --git a/modules/stochastic_tools/test/tests/samplers/mcmc/gold/des_5prop.json b/modules/stochastic_tools/test/tests/samplers/mcmc/gold/des_5prop.json index 903c8f35a42c..b7fe197895ae 100644 --- a/modules/stochastic_tools/test/tests/samplers/mcmc/gold/des_5prop.json +++ b/modules/stochastic_tools/test/tests/samplers/mcmc/gold/des_5prop.json @@ -1,5 +1,5 @@ { - "number_of_parts": 2, + "number_of_parts": 4, "part": 0, "reporters": { "constant": { @@ -7,12 +7,12 @@ "values": { "reporter_transfer:average:value": { "row_begin": 0, - "row_end": 20, + "row_end": 3, "type": "std::vector" }, "reporter_transfer:converged": { "row_begin": 0, - "row_end": 20, + "row_end": 3, "type": "std::vector" } } @@ -50,45 +50,11 @@ { "constant": { "reporter_transfer:average:value": [ - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, 0.0, 0.0, 0.0 ], "reporter_transfer:converged": [ - false, - false, - false, - false, - false, - false, - false, - false, - false, - false, - false, - false, - false, - false, - false, - false, - false, false, false, false @@ -119,36 +85,6 @@ ], "noise": 0.0, "outputs_required": [ - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, - 0.0, 0.0, 0.0, 0.0, @@ -186,43 +122,9 @@ "reporter_transfer:average:value": [ 0.09743591614083168, 0.09743591614083168, - 0.09743591614083168, - 0.09743591614083168, - 0.09743591614083168, - 0.07329136264166623, - 0.07329136264166623, - 0.07329136264166623, - 0.07329136264166623, - 0.07329136264166623, - 0.05178234237725436, - 0.05178234237725436, - 0.05178234237725436, - 0.05178234237725436, - 0.05178234237725436, - 0.039183877832323376, - 0.039183877832323376, - 0.039183877832323376, - 0.039183877832323376, - 0.039183877832323376 + 0.09743591614083168 ], "reporter_transfer:converged": [ - true, - true, - true, - true, - true, - true, - true, - true, - true, - true, - true, - true, - true, - true, - true, - true, - true, true, true, true @@ -262,37 +164,7 @@ 0.07329136264166623, 0.07329136264166623, 0.07329136264166623, - 0.07329136264166623, - 0.05178234237725436, - 0.05178234237725436, - 0.05178234237725436, - 0.05178234237725436, - 0.05178234237725436, - 0.039183877832323376, - 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max_parallel = 2 + min_parallel = 4 + max_parallel = 4 detail = 'using the base MCMC class; ' [] [pmcmc_base_bounds] @@ -18,8 +18,8 @@ allow_test_objects = true jsondiff = 'mcmc_base_bounds.json' cli_args = "Samplers/sample/lower_bound='-2.0 -2.0' Samplers/sample/upper_bound='2.0 2.0' Outputs/file_base='mcmc_base_bounds'" - min_parallel = 2 - max_parallel = 2 + min_parallel = 4 + max_parallel = 4 detail = 'using the base MCMC class with bounds specified; ' [] [imh_5prop] @@ -27,8 +27,8 @@ input = main_imh.i allow_test_objects = true jsondiff = 'imh_5prop.json' - min_parallel = 2 - max_parallel = 2 + min_parallel = 4 + max_parallel = 4 detail = 'using the independent Metropolis-Hastings class; ' [] [des_5prop] @@ -36,8 +36,8 @@ input = main_des.i allow_test_objects = true jsondiff = 'des_5prop.json' - min_parallel = 2 - max_parallel = 2 + min_parallel = 4 + max_parallel = 4 detail = 'using the differential evolution sampler class; ' [] [ss_5prop] @@ -45,8 +45,8 @@ input = main_ss.i allow_test_objects = true jsondiff = 'ss_5prop.json' - min_parallel = 2 - max_parallel = 2 + min_parallel = 4 + max_parallel = 4 detail = 'using the stretch sampler class; ' [] [des_5prop_var] @@ -54,19 +54,9 @@ input = main_des_var.i allow_test_objects = true jsondiff = 'des_5prop_var.json' - min_parallel = 2 - max_parallel = 2 - detail = 'using the differential evolution sampler class with variance inferred; ' - [] - [des_5prop_parallel] - type = 'JSONDiff' - input = main_des.i - allow_test_objects = true min_parallel = 4 max_parallel = 4 - jsondiff = 'des_5prop_parallel.json' - cli_args = "Outputs/file_base='des_5prop_parallel'" - detail = 'using the differential evolution sampler class with parallelization; ' + detail = 'using the differential evolution sampler class with variance inferred; ' [] [] [mcmc_sampling_errors]