LICENSE
MANIFEST.in
README.md
pyproject.toml
equilibration/__init__.py
equilibration/gromacs/01_NVT/step6.0_minimization.mdp
equilibration/gromacs/01_NVT/step6.1_equilibration.mdp
equilibration/gromacs/01_NVT/step6.2_equilibration.mdp
equilibration/gromacs/01_NVT/step6.3_equilibration.mdp
equilibration/gromacs/01_NVT/step6.4_equilibration.mdp
equilibration/gromacs/01_NVT/step6.5_equilibration.mdp
equilibration/gromacs/01_NVT/step6.6_equilibration.mdp
equilibration/gromacs/01_NVT/step7_production.mdp
equilibration/gromacs/02_NPT/step6.0_minimization.mdp
equilibration/gromacs/02_NPT/step6.1_equilibration.mdp
equilibration/gromacs/02_NPT/step6.2_equilibration.mdp
equilibration/gromacs/02_NPT/step6.3_equilibration.mdp
equilibration/gromacs/02_NPT/step6.4_equilibration.mdp
equilibration/gromacs/02_NPT/step6.5_equilibration.mdp
equilibration/gromacs/02_NPT/step6.6_equilibration.mdp
equilibration/gromacs/02_NPT/step7_production.mdp
equilibration/gromacs/03_NPAT/step6.0_minimization.mdp
equilibration/gromacs/03_NPAT/step6.1_equilibration.mdp
equilibration/gromacs/03_NPAT/step6.2_equilibration.mdp
equilibration/gromacs/03_NPAT/step6.3_equilibration.mdp
equilibration/gromacs/03_NPAT/step6.4_equilibration.mdp
equilibration/gromacs/03_NPAT/step6.5_equilibration.mdp
equilibration/gromacs/03_NPAT/step6.6_equilibration.mdp
equilibration/gromacs/03_NPAT/step7_production.mdp
equilibration/gromacs/04_NPgT/step6.0_minimization.mdp
equilibration/gromacs/04_NPgT/step6.1_equilibration.mdp
equilibration/gromacs/04_NPgT/step6.2_equilibration.mdp
equilibration/gromacs/04_NPgT/step6.3_equilibration.mdp
equilibration/gromacs/04_NPgT/step6.4_equilibration.mdp
equilibration/gromacs/04_NPgT/step6.5_equilibration.mdp
equilibration/gromacs/04_NPgT/step6.6_equilibration.mdp
equilibration/gromacs/04_NPgT/step7_production.mdp
equilibration/namd/01_NVT/step6.1_equilibration.inp
equilibration/namd/01_NVT/step6.2_equilibration.inp
equilibration/namd/01_NVT/step6.3_equilibration.inp
equilibration/namd/01_NVT/step6.4_equilibration.inp
equilibration/namd/01_NVT/step6.5_equilibration.inp
equilibration/namd/01_NVT/step6.6_equilibration.inp
equilibration/namd/01_NVT/step7_production.inp
equilibration/namd/02_NPT/step6.1_equilibration.inp
equilibration/namd/02_NPT/step6.2_equilibration.inp
equilibration/namd/02_NPT/step6.3_equilibration.inp
equilibration/namd/02_NPT/step6.4_equilibration.inp
equilibration/namd/02_NPT/step6.5_equilibration.inp
equilibration/namd/02_NPT/step6.6_equilibration.inp
equilibration/namd/02_NPT/step7_production.inp
equilibration/namd/03_NPAT/step6.1_equilibration.inp
equilibration/namd/03_NPAT/step6.2_equilibration.inp
equilibration/namd/03_NPAT/step6.3_equilibration.inp
equilibration/namd/03_NPAT/step6.4_equilibration.inp
equilibration/namd/03_NPAT/step6.5_equilibration.inp
equilibration/namd/03_NPAT/step6.6_equilibration.inp
equilibration/namd/03_NPAT/step7_production.inp
equilibration/namd/04_NPgT/step6.1_equilibration.inp
equilibration/namd/04_NPgT/step6.2_equilibration.inp
equilibration/namd/04_NPgT/step6.3_equilibration.inp
equilibration/namd/04_NPgT/step6.4_equilibration.inp
equilibration/namd/04_NPgT/step6.5_equilibration.inp
equilibration/namd/04_NPgT/step6.6_equilibration.inp
equilibration/namd/04_NPgT/step7_production.inp
equilibration/openmm/01_NVT/step6.1_equilibration.inp
equilibration/openmm/01_NVT/step6.2_equilibration.inp
equilibration/openmm/01_NVT/step6.3_equilibration.inp
equilibration/openmm/01_NVT/step6.4_equilibration.inp
equilibration/openmm/01_NVT/step6.5_equilibration.inp
equilibration/openmm/01_NVT/step6.6_equilibration.inp
equilibration/openmm/01_NVT/step7_production.inp
equilibration/openmm/02_NPT/step6.1_equilibration.inp
equilibration/openmm/02_NPT/step6.2_equilibration.inp
equilibration/openmm/02_NPT/step6.3_equilibration.inp
equilibration/openmm/02_NPT/step6.4_equilibration.inp
equilibration/openmm/02_NPT/step6.5_equilibration.inp
equilibration/openmm/02_NPT/step6.6_equilibration.inp
equilibration/openmm/02_NPT/step7_production.inp
equilibration/openmm/03_NPAT/step6.1_equilibration.inp
equilibration/openmm/03_NPAT/step6.2_equilibration.inp
equilibration/openmm/03_NPAT/step6.3_equilibration.inp
equilibration/openmm/03_NPAT/step6.4_equilibration.inp
equilibration/openmm/03_NPAT/step6.5_equilibration.inp
equilibration/openmm/03_NPAT/step6.6_equilibration.inp
equilibration/openmm/03_NPAT/step7_production.inp
equilibration/openmm/04_NPgT/step6.1_equilibration.inp
equilibration/openmm/04_NPgT/step6.2_equilibration.inp
equilibration/openmm/04_NPgT/step6.3_equilibration.inp
equilibration/openmm/04_NPgT/step6.4_equilibration.inp
equilibration/openmm/04_NPgT/step6.5_equilibration.inp
equilibration/openmm/04_NPgT/step6.6_equilibration.inp
equilibration/openmm/04_NPgT/step7_production.inp
equilibration/openmm/scripts/omm_barostat.py
equilibration/openmm/scripts/omm_readinputs.py
equilibration/openmm/scripts/omm_readparams.py
equilibration/openmm/scripts/omm_restraints.py
equilibration/openmm/scripts/omm_rewrap.py
equilibration/openmm/scripts/omm_vfswitch.py
equilibration/openmm/scripts/openmm_run.py
gatewizard/__init__.py
gatewizard/main.py
gatewizard.egg-info/PKG-INFO
gatewizard.egg-info/SOURCES.txt
gatewizard.egg-info/dependency_links.txt
gatewizard.egg-info/entry_points.txt
gatewizard.egg-info/requires.txt
gatewizard.egg-info/top_level.txt
gatewizard/core/__init__.py
gatewizard/core/builder.py
gatewizard/core/file_manager.py
gatewizard/core/job_monitor.py
gatewizard/core/mempro.py
gatewizard/core/preparation.py
gatewizard/core/structure_manager.py
gatewizard/tools/__init__.py
gatewizard/tools/equilibration.py
gatewizard/tools/force_fields.py
gatewizard/tools/ligand_parametrization.py
gatewizard/tools/namd_water.py
gatewizard/tools/validators.py
gatewizard/utils/__init__.py
gatewizard/utils/bilayer_utils.py
gatewizard/utils/config.py
gatewizard/utils/gromacs_analysis.py
gatewizard/utils/helpers.py
gatewizard/utils/lipid_bilayer_analysis.py
gatewizard/utils/logger.py
gatewizard/utils/namd_analysis.py
gatewizard/utils/openmm_analysis.py
gatewizard/utils/optional_deps.py
gatewizard/utils/protein_capping.py
tests/__init__.py
tests/test_analysis.py
tests/test_builder.py
tests/test_equilibration.py
tests/test_equilibration_gromacs.py
tests/test_equilibration_openmm.py
tests/test_lipid_bilayer_analysis.py
tests/test_mempro.py
tests/test_namd_water.py
tests/test_optional_deps.py
tests/test_preparation.py
tests/test_structure_manager.py
tests/analysis_examples/analysis_example_01.py
tests/analysis_examples/analysis_example_02.py
tests/analysis_examples/analysis_example_03.py
tests/analysis_examples/analysis_example_04.py
tests/analysis_examples/analysis_example_05.py
tests/analysis_examples/analysis_example_06.py
tests/analysis_examples/analysis_example_07.py
tests/analysis_examples/analysis_example_08.py
tests/analysis_examples/analysis_example_09.py
tests/analysis_examples/analysis_example_10.py
tests/analysis_examples/analysis_example_11.py
tests/analysis_examples/analysis_example_12.py
tests/analysis_examples/analysis_example_13.py
tests/analysis_examples/analysis_example_14.py
tests/analysis_examples/analysis_example_15.py
tests/builder_examples/builder_example_01.py
tests/builder_examples/builder_example_02.py
tests/builder_examples/builder_example_03.py
tests/builder_examples/builder_example_04.py
tests/builder_examples/builder_example_05.py
tests/builder_examples/builder_example_06.py
tests/builder_examples/builder_example_07.py
tests/builder_examples/builder_example_08.py
tests/builder_examples/builder_example_09.py
tests/builder_examples/builder_example_10.py
tests/builder_examples/builder_example_11.py
tests/builder_examples/builder_example_12.py
tests/builder_examples/builder_example_13.py
tests/builder_examples/builder_example_14.py
tests/builder_examples/builder_example_15.py
tests/builder_examples/builder_example_16.py
tests/builder_examples/builder_example_17.py
tests/builder_examples/builder_example_18.py
tests/builder_examples/builder_example_19.py
tests/builder_examples/builder_example_20.py
tests/builder_examples/builder_example_21.py
tests/builder_examples/builder_example_22.py
tests/builder_examples/builder_example_23.py
tests/builder_examples/builder_example_24.py
tests/builder_examples/builder_example_25.py
tests/builder_examples/builder_example_26.py
tests/equilibration_examples/equilibration_example_01.py
tests/equilibration_examples/equilibration_example_02.py
tests/equilibration_examples/equilibration_example_03.py
tests/equilibration_examples/equilibration_example_04.py
tests/equilibration_examples/equilibration_example_05.py
tests/equilibration_examples/equilibration_example_06.py
tests/equilibration_examples/equilibration_example_07.py
tests/equilibration_examples/equilibration_example_08.py
tests/equilibration_examples/equilibration_example_09.py
tests/equilibration_examples/openmm_example_01.py
tests/equilibration_examples/openmm_example_02.py
tests/equilibration_examples/openmm_example_03.py
tests/equilibration_examples/popc_membrane/status_utils.py
tests/mempro_examples/mempro_example_01.py
tests/mempro_examples/mempro_example_02.py
tests/mempro_examples/mempro_example_03.py
tests/mempro_examples/mempro_example_04.py
tests/mempro_examples/mempro_example_05.py
tests/mempro_examples/mempro_example_06.py
tests/mempro_examples/mempro_example_07.py
tests/mempro_examples/mempro_example_08.py
tests/mempro_examples/mempro_example_09.py
tests/mempro_examples/mempro_example_10.py
tests/mempro_examples/mempro_example_11.py
tests/mempro_examples/mempro_example_12.py
tests/preparation_examples/preparation_example_01.py
tests/preparation_examples/preparation_example_02.py
tests/preparation_examples/preparation_example_03.py
tests/preparation_examples/preparation_example_04.py
tests/preparation_examples/preparation_example_05.py
tests/preparation_examples/preparation_example_06.py
tests/preparation_examples/preparation_example_07.py
tests/preparation_examples/preparation_example_08.py
tests/preparation_examples/preparation_example_09.py
tests/preparation_examples/preparation_example_10.py
tests/preparation_examples/preparation_example_11.py
tests/preparation_examples/preparation_example_12.py
tests/preparation_examples/preparation_example_13.py
tests/preparation_examples/preparation_example_14.py
tests/preparation_examples/preparation_example_15.py
tests/preparation_examples/preparation_example_16.py
tests/preparation_examples/preparation_example_17.py
tests/preparation_examples/preparation_example_18.py
tests/preparation_examples/preparation_example_19.py
tests/preparation_examples/preparation_example_20.py
tests/preparation_examples/preparation_example_21.py
tests/preparation_examples/preparation_example_22.py
tests/structure_manager_examples/structure_manager_example_01.py
tests/structure_manager_examples/structure_manager_example_02.py
tests/structure_manager_examples/structure_manager_example_03.py
tests/structure_manager_examples/structure_manager_example_04.py
tests/structure_manager_examples/structure_manager_example_05.py
tests/structure_manager_examples/structure_manager_example_06.py
tests/structure_manager_examples/structure_manager_example_07.py
tests/structure_manager_examples/structure_manager_example_08.py
tests/structure_manager_examples/structure_manager_example_09.py
tests/structure_manager_examples/structure_manager_example_10.py
tests/structure_manager_examples/structure_manager_example_11.py
tests/structure_manager_examples/structure_manager_example_12.py
tests/structure_manager_examples/structure_manager_example_13.py
tests/structure_manager_examples/structure_manager_example_14.py
tests/structure_manager_examples/structure_manager_example_15.py