# Autogenerated by nbdev

d = { 'settings': { 'branch': 'main',
                'doc_baseurl': '/kdock',
                'doc_host': 'https://sky1ove.github.io',
                'git_url': 'https://github.com/sky1ove/kdock',
                'lib_path': 'kdock'},
  'syms': { 'kdock.af3.analyze': { 'kdock.af3.analyze.copy_file': ('af3/analyze.html#copy_file', 'kdock/af3/analyze.py'),
                                   'kdock.af3.analyze.get_3d_report': ('af3/analyze.html#get_3d_report', 'kdock/af3/analyze.py'),
                                   'kdock.af3.analyze.get_report': ('af3/analyze.html#get_report', 'kdock/af3/analyze.py'),
                                   'kdock.af3.analyze.get_summary_df': ('af3/analyze.html#get_summary_df', 'kdock/af3/analyze.py'),
                                   'kdock.af3.analyze.get_top_cases': ('af3/analyze.html#get_top_cases', 'kdock/af3/analyze.py'),
                                   'kdock.af3.analyze.process_summary_df': ('af3/analyze.html#process_summary_df', 'kdock/af3/analyze.py'),
                                   'kdock.af3.analyze.read_summary_json': ('af3/analyze.html#read_summary_json', 'kdock/af3/analyze.py')},
            'kdock.af3.docker': { 'kdock.af3.docker.docker_multi_full': ('af3/docker.html#docker_multi_full', 'kdock/af3/docker.py'),
                                  'kdock.af3.docker.docker_multi_infer': ('af3/docker.html#docker_multi_infer', 'kdock/af3/docker.py'),
                                  'kdock.af3.docker.docker_multi_msa': ('af3/docker.html#docker_multi_msa', 'kdock/af3/docker.py'),
                                  'kdock.af3.docker.docker_single_full': ('af3/docker.html#docker_single_full', 'kdock/af3/docker.py'),
                                  'kdock.af3.docker.get_docker_command': ('af3/docker.html#get_docker_command', 'kdock/af3/docker.py')},
            'kdock.af3.json': { 'kdock.af3.json.assign_atom_names_from_graph': ( 'af3/json.html#assign_atom_names_from_graph',
                                                                                 'kdock/af3/json.py'),
                                'kdock.af3.json.dump_json': ('af3/json.html#dump_json', 'kdock/af3/json.py'),
                                'kdock.af3.json.get_protein_ccd_json': ('af3/json.html#get_protein_ccd_json', 'kdock/af3/json.py'),
                                'kdock.af3.json.get_protein_ccdcode_json': ('af3/json.html#get_protein_ccdcode_json', 'kdock/af3/json.py'),
                                'kdock.af3.json.get_protein_json': ('af3/json.html#get_protein_json', 'kdock/af3/json.py'),
                                'kdock.af3.json.get_protein_smiles_json': ('af3/json.html#get_protein_smiles_json', 'kdock/af3/json.py'),
                                'kdock.af3.json.mol_to_ccd_text': ('af3/json.html#mol_to_ccd_text', 'kdock/af3/json.py'),
                                'kdock.af3.json.read_json': ('af3/json.html#read_json', 'kdock/af3/json.py'),
                                'kdock.af3.json.sdf2ccd': ('af3/json.html#sdf2ccd', 'kdock/af3/json.py'),
                                'kdock.af3.json.split_nfolder': ('af3/json.html#split_nfolder', 'kdock/af3/json.py')},
            'kdock.af3.protein_pairs': { 'kdock.af3.protein_pairs.a3m_to_seq': ( 'af3/protein_pairs.html#a3m_to_seq',
                                                                                 'kdock/af3/protein_pairs.py'),
                                         'kdock.af3.protein_pairs.copy_a3m': ( 'af3/protein_pairs.html#copy_a3m',
                                                                               'kdock/af3/protein_pairs.py'),
                                         'kdock.af3.protein_pairs.dump_json_folder': ( 'af3/protein_pairs.html#dump_json_folder',
                                                                                       'kdock/af3/protein_pairs.py'),
                                         'kdock.af3.protein_pairs.generate_pair_df': ( 'af3/protein_pairs.html#generate_pair_df',
                                                                                       'kdock/af3/protein_pairs.py'),
                                         'kdock.af3.protein_pairs.get_colabfold_cmd': ( 'af3/protein_pairs.html#get_colabfold_cmd',
                                                                                        'kdock/af3/protein_pairs.py'),
                                         'kdock.af3.protein_pairs.get_multi_protein_json': ( 'af3/protein_pairs.html#get_multi_protein_json',
                                                                                             'kdock/af3/protein_pairs.py'),
                                         'kdock.af3.protein_pairs.get_protein_subjson': ( 'af3/protein_pairs.html#get_protein_subjson',
                                                                                          'kdock/af3/protein_pairs.py')},
            'kdock.core.data': { 'kdock.core.data.Collins': ('core/data.html#collins', 'kdock/core/data.py'),
                                 'kdock.core.data.Collins.get_antibiotics_2k': ( 'core/data.html#collins.get_antibiotics_2k',
                                                                                 'kdock/core/data.py'),
                                 'kdock.core.data.Collins.get_antibiotics_39k': ( 'core/data.html#collins.get_antibiotics_39k',
                                                                                  'kdock/core/data.py'),
                                 'kdock.core.data.Collins.get_antibiotics_enzyme': ( 'core/data.html#collins.get_antibiotics_enzyme',
                                                                                     'kdock/core/data.py'),
                                 'kdock.core.data.Kras': ('core/data.html#kras', 'kdock/core/data.py'),
                                 'kdock.core.data.Kras.get_mirati_g12d': ('core/data.html#kras.get_mirati_g12d', 'kdock/core/data.py'),
                                 'kdock.core.data.Kras.get_mirati_g12d_raw': ( 'core/data.html#kras.get_mirati_g12d_raw',
                                                                               'kdock/core/data.py'),
                                 'kdock.core.data.Kras.get_seq': ('core/data.html#kras.get_seq', 'kdock/core/data.py'),
                                 'kdock.core.data.fetch_csv': ('core/data.html#fetch_csv', 'kdock/core/data.py')},
            'kdock.core.ligand': { 'kdock.core.ligand.compress_fp': ('core/ligand.html#compress_fp', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.get_fp': ('core/ligand.html#get_fp', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.get_rdkit': ('core/ligand.html#get_rdkit', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.get_rdkit_3d': ('core/ligand.html#get_rdkit_3d', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.get_rdkit_all': ('core/ligand.html#get_rdkit_all', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.get_rdkit_df': ('core/ligand.html#get_rdkit_df', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.get_same_mol_group': ('core/ligand.html#get_same_mol_group', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.hash_fp': ('core/ligand.html#hash_fp', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.plot_drug': ('core/ligand.html#plot_drug', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.preprocess': ('core/ligand.html#preprocess', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.rdkit_conformer': ('core/ligand.html#rdkit_conformer', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.remove_hi_corr': ('core/ligand.html#remove_hi_corr', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.tanimoto': ('core/ligand.html#tanimoto', 'kdock/core/ligand.py'),
                                   'kdock.core.ligand.tanimoto_numba': ('core/ligand.html#tanimoto_numba', 'kdock/core/ligand.py')},
            'kdock.core.plot': { 'kdock.core.plot.plot_2d': ('core/plot.html#plot_2d', 'kdock/core/plot.py'),
                                 'kdock.core.plot.plot_corr': ('core/plot.html#plot_corr', 'kdock/core/plot.py'),
                                 'kdock.core.plot.reduce_feature': ('core/plot.html#reduce_feature', 'kdock/core/plot.py'),
                                 'kdock.core.plot.set_sns': ('core/plot.html#set_sns', 'kdock/core/plot.py')},
            'kdock.core.protein': { 'kdock.core.protein.apply_mut_complex': ( 'core/protein.html#apply_mut_complex',
                                                                              'kdock/core/protein.py'),
                                    'kdock.core.protein.apply_mut_single': ('core/protein.html#apply_mut_single', 'kdock/core/protein.py'),
                                    'kdock.core.protein.compare_seq': ('core/protein.html#compare_seq', 'kdock/core/protein.py'),
                                    'kdock.core.protein.get_uniprot_features': ( 'core/protein.html#get_uniprot_features',
                                                                                 'kdock/core/protein.py'),
                                    'kdock.core.protein.get_uniprot_kd': ('core/protein.html#get_uniprot_kd', 'kdock/core/protein.py'),
                                    'kdock.core.protein.get_uniprot_seq': ('core/protein.html#get_uniprot_seq', 'kdock/core/protein.py'),
                                    'kdock.core.protein.get_uniprot_type': ('core/protein.html#get_uniprot_type', 'kdock/core/protein.py')},
            'kdock.core.utils': { 'kdock.core.utils.copy_files': ('core/utils.html#copy_files', 'kdock/core/utils.py'),
                                  'kdock.core.utils.get_box': ('core/utils.html#get_box', 'kdock/core/utils.py'),
                                  'kdock.core.utils.get_rec_lig': ('core/utils.html#get_rec_lig', 'kdock/core/utils.py'),
                                  'kdock.core.utils.rglob': ('core/utils.html#rglob', 'kdock/core/utils.py'),
                                  'kdock.core.utils.view_complex': ('core/utils.html#view_complex', 'kdock/core/utils.py'),
                                  'kdock.core.utils.view_mol': ('core/utils.html#view_mol', 'kdock/core/utils.py')},
            'kdock.gnina.dock': { 'kdock.gnina.dock.extract_gnina_dock': ( 'gnina/gnina_docking.html#extract_gnina_dock',
                                                                           'kdock/gnina/dock.py'),
                                  'kdock.gnina.dock.gnina_dock': ('gnina/gnina_docking.html#gnina_dock', 'kdock/gnina/dock.py'),
                                  'kdock.gnina.dock.setup_gnina_docker': ( 'gnina/gnina_docking.html#setup_gnina_docker',
                                                                           'kdock/gnina/dock.py'),
                                  'kdock.gnina.dock.setup_gnina_local': ( 'gnina/gnina_docking.html#setup_gnina_local',
                                                                          'kdock/gnina/dock.py')},
            'kdock.gnina.rescore': { 'kdock.gnina.rescore.ChainSelect': ( 'gnina/gnina_af3_rescore.html#chainselect',
                                                                          'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.ChainSelect.__init__': ( 'gnina/gnina_af3_rescore.html#chainselect.__init__',
                                                                                   'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.ChainSelect.accept_chain': ( 'gnina/gnina_af3_rescore.html#chainselect.accept_chain',
                                                                                       'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.extract_gnina_rescore': ( 'gnina/gnina_af3_rescore.html#extract_gnina_rescore',
                                                                                    'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.get_gnina_rescore': ( 'gnina/gnina_af3_rescore.html#get_gnina_rescore',
                                                                                'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.get_gnina_rescore_folder': ( 'gnina/gnina_af3_rescore.html#get_gnina_rescore_folder',
                                                                                       'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.gnina_rescore_docker': ( 'gnina/gnina_af3_rescore.html#gnina_rescore_docker',
                                                                                   'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.gnina_rescore_local': ( 'gnina/gnina_af3_rescore.html#gnina_rescore_local',
                                                                                  'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.pdb2sdf': ('gnina/gnina_af3_rescore.html#pdb2sdf', 'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.prepare_rec_lig': ( 'gnina/gnina_af3_rescore.html#prepare_rec_lig',
                                                                              'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.rename_residues': ( 'gnina/gnina_af3_rescore.html#rename_residues',
                                                                              'kdock/gnina/rescore.py'),
                                     'kdock.gnina.rescore.split_cif': ('gnina/gnina_af3_rescore.html#split_cif', 'kdock/gnina/rescore.py')},
            'kdock.px.core': { 'kdock.px.core.get_protein_ligand_df_json': ( 'protenix/protenix.html#get_protein_ligand_df_json',
                                                                             'kdock/px/core.py'),
                               'kdock.px.core.get_single_job': ('protenix/protenix.html#get_single_job', 'kdock/px/core.py'),
                               'kdock.px.core.get_single_protein_ligand_json': ( 'protenix/protenix.html#get_single_protein_ligand_json',
                                                                                 'kdock/px/core.py'),
                               'kdock.px.core.get_virtual_screening_json': ( 'protenix/protenix.html#get_virtual_screening_json',
                                                                             'kdock/px/core.py')},
            'kdock.px.dock': { 'kdock.px.dock.capture_output': ('protenix/proteinix_dock.html#capture_output', 'kdock/px/dock.py'),
                               'kdock.px.dock.get_protenix_dock': ('protenix/proteinix_dock.html#get_protenix_dock', 'kdock/px/dock.py'),
                               'kdock.px.dock.get_protenix_vina_dock': ( 'protenix/proteinix_dock.html#get_protenix_vina_dock',
                                                                         'kdock/px/dock.py'),
                               'kdock.px.dock.json2sdf': ('protenix/proteinix_dock.html#json2sdf', 'kdock/px/dock.py')}}}
