├── LICENSE ├── README.md ├── amcp ├── amcp.py ├── amcp_lib.py ├── analysis.py ├── ml_models.py ├── modes.py ├── optimRangerLars │ ├── __init__.py │ ├── foo.txt │ ├── lamb.py │ ├── lookahead.py │ ├── novograd.py │ ├── over9000.py │ ├── radam.py │ ├── ralamb.py │ └── ranger.py ├── parsers.py └── plots.py ├── amcp_test ├── goldenData │ ├── amcp_cal_alphas0_m0.z │ ├── amcp_cal_alphas0_m1.z │ ├── amcp_cal_alphas1_m0.z │ ├── amcp_cal_alphas1_m1.z │ ├── amcp_clf_m0.z │ ├── amcp_clf_m1.z │ ├── proteinTest_100k_predict.txt │ ├── proteinTest_100k_predict_amcp.txt.bz2 │ ├── proteinTest_50k_train.txt │ ├── proteinTest_50k_train_amcp.txt.bz2 │ ├── test_predict_100k_out.txt.bz2 │ ├── test_validation_out_golden.txt │ └── test_validation_train_out_golden.txt └── test_amcp.py ├── environment.yml ├── plots ├── ml_distributions.png ├── overview.png ├── significancesVsErrorRate.png └── significancesVsRelativeSetDistribution.png ├── scripts ├── amcp_analyseScoreDistributions.py ├── amcp_inputFromDock.py 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