├── .github └── workflows │ └── ci.yml ├── .gitignore ├── CMakeLists.txt ├── LICENSE ├── MANIFEST.in ├── README.md ├── ci └── ci-environment.yml ├── configure ├── docs ├── Doxyfile ├── Makefile ├── api_c.md ├── basics.md ├── conf.py ├── contributing.md ├── cpp_api.rst ├── examples │ ├── archive.ipynb │ ├── data │ │ ├── d_enc.csv │ │ ├── d_example_patients.csv │ │ └── d_example_patients_long.csv │ ├── figs │ │ ├── output_14_0.png │ │ ├── output_15_0.png │ │ └── output_17_1.png │ ├── generate_example_longitudinal_data.py │ └── longitudinal.ipynb ├── feat_diagram.svg ├── index.md ├── installation.md ├── mathjaxhelper.js ├── overview.md ├── py_api.rst ├── rep_learning_demo_2d.svg └── requirements.txt ├── environment.yml ├── examples ├── .ipynb_checkpoints │ └── automatic_differentiation-checkpoint.ipynb ├── auc │ └── auc_example.py ├── automatic_differentiation.ipynb ├── d_pagie.tsv └── validate_test.csv ├── feat ├── __init__.py ├── feat.py └── versionstr.py ├── install ├── mkdocs.yml ├── setup.cfg ├── setup.py ├── src ├── dat │ ├── data.cc │ ├── data.h │ ├── state.cc │ └── state.h ├── eval │ ├── evaluation.cc │ ├── evaluation.h │ ├── metrics.cc │ ├── metrics.h │ ├── scorer.cc │ └── scorer.h ├── feat.cc ├── feat.h ├── init.h ├── model │ ├── ml.cc │ ├── ml.h │ └── shogun │ │ ├── MulticlassLogisticRegression.cc │ │ ├── MulticlassLogisticRegression.h │ │ ├── MyCARTree.cc │ │ ├── MyCARTree.h │ │ ├── MyCARTreeNodeData.cc │ │ ├── MyCARTreeNodeData.h │ │ ├── MyLibLinear.cc │ │ ├── MyLibLinear.h │ │ ├── MyMulticlassLibLinear.cc │ │ ├── MyMulticlassLibLinear.h │ │ ├── MyRandomCARTree.cc │ │ ├── MyRandomCARTree.h │ │ ├── MyRandomForest.cc │ │ └── MyRandomForest.h ├── opt │ ├── auto_backprop.cc │ ├── auto_backprop.h │ ├── hillclimb.cc │ └── hillclimb.h ├── params.cc ├── params.h ├── pop │ ├── archive.cc │ ├── archive.h │ ├── cuda-op │ │ ├── arithmatic │ │ │ ├── n_2dgaussian.cu │ │ │ ├── n_add.cu │ │ │ ├── n_cos.cu │ │ │ ├── n_cube.cu │ │ │ ├── n_divide.cu │ │ │ ├── n_exponent.cu │ │ │ ├── n_exponential.cu │ │ │ ├── n_float.cu │ │ │ ├── n_gaussian.cu │ │ │ ├── n_log.cu │ │ │ ├── n_logit.cu │ │ │ ├── n_multiply.cu │ │ │ ├── n_relu.cu │ │ │ ├── n_sign.cu │ │ │ ├── n_sin.cu │ │ │ ├── n_sqrt.cu │ │ │ ├── n_square.cu │ │ │ ├── n_step.cu │ │ │ ├── n_subtract.cu │ │ │ └── n_tanh.cu │ │ ├── control │ │ │ ├── n_if.cu │ │ │ └── n_ifthenelse.cu │ │ ├── cuda_utils.cu │ │ ├── cuda_utils.h │ │ ├── error_handling.h │ │ ├── kernels.h │ │ ├── learn │ │ │ └── n_split.cu │ │ ├── logic │ │ │ ├── n_and.cu │ │ │ ├── n_equal.cu │ │ │ ├── n_geq.cu │ │ │ ├── n_greaterthan.cu │ │ │ ├── n_leq.cu │ │ │ ├── n_lessthan.cu │ │ │ ├── n_not.cu │ │ │ ├── n_or.cu │ │ │ └── n_xor.cu │ │ ├── state_utils.cu │ │ ├── state_utils.h │ │ └── terminals │ │ │ ├── n_constant.cu │ │ │ └── n_variable.cu │ ├── individual.cc │ ├── individual.h │ ├── nodemap.h │ ├── nodevector.cc │ ├── nodevector.h │ ├── nodewrapper.h │ ├── op │ │ ├── arithmetic │ │ │ ├── n_2dgaussian.cc │ │ │ ├── n_2dgaussian.h │ │ │ ├── n_add.cc │ │ │ ├── n_add.h │ │ │ ├── n_cos.cc │ │ │ ├── n_cos.h │ │ │ ├── n_cube.cc │ │ │ ├── n_cube.h │ │ │ ├── n_divide.cc │ │ │ ├── n_divide.h │ │ │ ├── n_exponent.cc │ │ │ ├── n_exponent.h │ │ │ ├── n_exponential.cc │ │ │ ├── n_exponential.h │ │ │ ├── n_float.cc │ │ │ ├── n_float.h │ │ │ ├── n_gaussian.cc │ │ │ ├── n_gaussian.h │ │ │ ├── n_log.cc │ │ │ ├── n_log.h │ │ │ ├── n_logit.cc │ │ │ ├── n_logit.h │ │ │ ├── n_multiply.cc │ │ │ ├── n_multiply.h │ │ │ ├── n_relu.cc │ │ │ ├── n_relu.h │ │ │ ├── n_sign.cc │ │ │ ├── n_sign.h │ │ │ ├── n_sin.cc │ │ │ ├── n_sin.h │ │ │ ├── n_sqrt.cc │ │ │ ├── n_sqrt.h │ │ │ ├── n_square.cc │ │ │ ├── n_square.h │ │ │ ├── n_step.cc │ │ │ ├── n_step.h │ │ │ ├── n_subtract.cc │ │ │ ├── n_subtract.h │ │ │ ├── n_tanh.cc │ │ │ └── n_tanh.h │ │ ├── control │ │ │ ├── n_if.cc │ │ │ ├── n_if.h │ │ │ ├── n_ifthenelse.cc │ │ │ └── n_ifthenelse.h │ │ ├── learn │ │ │ ├── n_fuzzy_fixed_split.cc │ │ │ ├── n_fuzzy_fixed_split.h │ │ │ ├── n_fuzzy_split.cc │ │ │ ├── n_fuzzy_split.h │ │ │ ├── n_split.cc │ │ │ └── n_split.h │ │ ├── logic │ │ │ ├── n_and.cc │ │ │ ├── n_and.h │ │ │ ├── n_equal.cc │ │ │ ├── n_equal.h │ │ │ ├── n_geq.cc │ │ │ ├── n_geq.h │ │ │ ├── n_greaterthan.cc │ │ │ ├── n_greaterthan.h │ │ │ ├── n_leq.cc │ │ │ ├── n_leq.h │ │ │ ├── n_lessthan.cc │ │ │ ├── n_lessthan.h │ │ │ ├── n_not.cc │ │ │ ├── n_not.h │ │ │ ├── n_or.cc │ │ │ ├── n_or.h │ │ │ ├── n_xor.cc │ │ │ └── n_xor.h │ │ ├── longitudinal │ │ │ ├── n_count.cc │ │ │ ├── n_count.h │ │ │ ├── n_kurtosis.cc │ │ │ ├── n_kurtosis.h │ │ │ ├── n_longitudinal.cc │ │ │ ├── n_longitudinal.h │ │ │ ├── n_max.cc │ │ │ ├── n_max.h │ │ │ ├── n_mean.cc │ │ │ ├── n_mean.h │ │ │ ├── n_median.cc │ │ │ ├── n_median.h │ │ │ ├── n_min.cc │ │ │ ├── n_min.h │ │ │ ├── n_recent.cc │ │ │ ├── n_recent.h │ │ │ ├── n_skew.cc │ │ │ ├── n_skew.h │ │ │ ├── n_slope.cc │ │ │ ├── n_slope.h │ │ │ ├── n_var.cc │ │ │ └── n_var.h │ │ ├── n_Dx.cc │ │ ├── n_Dx.h │ │ ├── n_train.h │ │ ├── node.cc │ │ ├── node.h │ │ └── terminals │ │ │ ├── n_constant.cc │ │ │ ├── n_constant.h │ │ │ ├── n_variable.cc │ │ │ └── n_variable.h │ ├── population.cc │ └── population.h ├── pybind.cc ├── sel │ ├── fair_lexicase.cc │ ├── fair_lexicase.h │ ├── lexicase.cc │ ├── lexicase.h │ ├── nsga2.cc │ ├── nsga2.h │ ├── offspring.cc │ ├── offspring.h │ ├── random.cc │ ├── random.h │ ├── selection.cc │ ├── selection.h │ ├── selection_operator.cc │ ├── selection_operator.h │ ├── simulated_annealing.cc │ ├── simulated_annealing.h │ ├── tournament.cc │ └── tournament.h ├── util │ ├── error.cc │ ├── error.h │ ├── io.cc │ ├── io.h │ ├── logger.cc │ ├── logger.h │ ├── rnd.cc │ ├── rnd.h │ ├── serialization.h │ ├── utils.cc │ └── utils.h └── vary │ ├── variation.cc │ └── variation.h └── tests ├── Makefile ├── backPropTests.cc ├── cudaTestUtils.cc ├── cudaTestUtils.h ├── evaluationTests.cc ├── featTests.cc ├── gtest.cc ├── individualTests.cc ├── nb_tests.py ├── nodeTests.cc ├── paramTests.cc ├── populationTests.cc ├── randomTests.cc 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