Index

_

__check_enough_values() (benchstab.utils.html_parser.HTMLParser method) __exception_wrapper() (benchstab.predictors.base.BasePredictor method) (benchstab.preprocessor.Preprocessor method) __fasta_offsets_from_sifts() (benchstab.utils.structure.Fasta class method) __get() (benchstab.predictors.base.BasePredictor method) __get_author_residue_number_offset() (benchstab.utils.structure.Fasta class method) __map() (benchstab.client.BenchStab method) __parse_fasta_mutation() (benchstab.preprocessor.Preprocessor method) __periodically_gather_results() (benchstab.client.BenchStab method) __post() (benchstab.predictors.base.BasePredictor method) __prepare_payload() (benchstab.predictors.base.BasePredictor method) __run() (benchstab.client.BenchStab method) __to_multipart() (benchstab.utils.structure.File method) _aggregate() (benchstab.predictors.base.BasePredictor method) _AutoMute (class in benchstab.predictors.web.automute.base) _BaseError _BiosigAPIPredictor (class in benchstab.predictors.web.biosiglab.base) _constructor (benchstab.utils.dataset.DatasetRow property) (benchstab.utils.dataset.PredictorDataset property) _constructor_expanddim (benchstab.utils.dataset.DatasetRow property) _constructor_sliced (benchstab.utils.dataset.PredictorDataset property) _CUPSAT (class in benchstab.predictors.web.cupsat.base) _DDGun (class in benchstab.predictors.web.ddgun.base) _DeepDDG (class in benchstab.predictors.web.deepddg.base) _DeepDDG__extract_ddg_handler() (benchstab.predictors.web.deepddg.base._DeepDDG method) _DUET (class in benchstab.predictors.web.duet.base) _find_delimiter() (benchstab.utils.structure.Fasta class method) _IMutant2 (class in benchstab.predictors.web.imutant.base) _IMutant3 (class in benchstab.predictors.web.imutant.base) _INPS (class in benchstab.predictors.web.inps.base) _INPS__extract_ddg_handler() (benchstab.predictors.web.inps.base._INPS method)

_INPS__retrieve_formkey_handler() (benchstab.predictors.web.inps.base._INPS method) _Maestro (class in benchstab.predictors.web.maestro.base) _Maestro__retrieve_jobid_handler() (benchstab.predictors.web.maestro.base._Maestro method) _mCSM (class in benchstab.predictors.web.mcsm.base) _mCSM__rename() (benchstab.predictors.web.mcsm.base._mCSM method) _MUpro (class in benchstab.predictors.web.mupro.base) _PONSol2 (class in benchstab.predictors.web.ponsol.base) _PONSol2__csrf_handler() (benchstab.predictors.web.ponsol.base._PONSol2 method) _PoPMuSiC (class in benchstab.predictors.web.popmusic.base) _PoPMuSiC__csrf_handler() (benchstab.predictors.web.popmusic.base._PoPMuSiC method) _PoPMuSiC__delete() (benchstab.predictors.web.popmusic.base._PoPMuSiC method) _PoPMuSiC__extract_results() (benchstab.predictors.web.popmusic.base._PoPMuSiC method) _PoPMuSiC__open_submission() (benchstab.predictors.web.popmusic.base._PoPMuSiC method) _PoPMuSiC__submission_handler() (benchstab.predictors.web.popmusic.base._PoPMuSiC method) _PoPMuSiC__submit_request() (benchstab.predictors.web.popmusic.base._PoPMuSiC method) _PremPS (class in benchstab.predictors.web.premps.base) _PremPS__csrf_handler() (benchstab.predictors.web.premps.base._PremPS method) _PremPS__save_mutations_handler() (benchstab.predictors.web.premps.base._PremPS method) _PremPS__save_partners_handler() (benchstab.predictors.web.premps.base._PremPS method) _queue_prediction() (benchstab.predictors.base.BasePredictor method) _rcsb_polymer_instance_url (benchstab.utils.structure.Fasta attribute) _rcsb_url (benchstab.utils.structure.Fasta attribute) (benchstab.utils.structure.File attribute) (benchstab.utils.structure.PDB attribute) _run_prediction() (benchstab.predictors.base.BasePredictor method) _SAAFEC (class in benchstab.predictors.web.saafec.base) _SDM (class in benchstab.predictors.web.sdm.base) _sifts_url (benchstab.utils.structure.Fasta attribute) _SRide (class in benchstab.predictors.web.sride.base) _Status (class in benchstab.utils.status) _uniprot_url (benchstab.utils.structure.Fasta attribute) (benchstab.utils.structure.File attribute)

A

aggr_columns (benchstab.predictors.base.BasePredictor attribute) async_default_callback() (benchstab.predictors.base.BasePredictor class method)

AuthenticationFailed (class in benchstab.utils.status) Authenticaton (class in benchstab.utils.status) AutoMutePdbID (class in benchstab.predictors.web.automute.id)

B

BaseAuthentication (class in benchstab.predictors.base) BaseCredentials (class in benchstab.predictors.base) BaseGetPredictor (class in benchstab.predictors.base) BasePostPredictor (class in benchstab.predictors.base) BasePredictor (class in benchstab.predictors.base) BenchStab (class in benchstab.client) benchstab.client module benchstab.predictors.base module benchstab.predictors.web.automute.base module benchstab.predictors.web.automute.id module benchstab.predictors.web.biosiglab.base module benchstab.predictors.web.biosiglab.file module benchstab.predictors.web.biosiglab.id module benchstab.predictors.web.cupsat.base module benchstab.predictors.web.cupsat.id module benchstab.predictors.web.ddgun.base module benchstab.predictors.web.ddgun.file module benchstab.predictors.web.ddgun.id module benchstab.predictors.web.ddgun.sequence module benchstab.predictors.web.deepddg.base module benchstab.predictors.web.deepddg.file module benchstab.predictors.web.deepddg.id module benchstab.predictors.web.duet.base module benchstab.predictors.web.duet.file module benchstab.predictors.web.duet.id module benchstab.predictors.web.imutant.base module benchstab.predictors.web.imutant.file module benchstab.predictors.web.imutant.id module benchstab.predictors.web.imutant.sequence module benchstab.predictors.web.inps.base module benchstab.predictors.web.inps.id module benchstab.predictors.web.maestro.base module benchstab.predictors.web.maestro.id module

benchstab.predictors.web.mcsm.base module benchstab.predictors.web.mcsm.file module benchstab.predictors.web.mupro.base module benchstab.predictors.web.mupro.file module benchstab.predictors.web.mupro.sequence module benchstab.predictors.web.ponsol.base module benchstab.predictors.web.ponsol.sequence module benchstab.predictors.web.popmusic.base module benchstab.predictors.web.popmusic.id module benchstab.predictors.web.premps.base module benchstab.predictors.web.premps.file module benchstab.predictors.web.premps.id module benchstab.predictors.web.saafec.base module benchstab.predictors.web.saafec.sequence module benchstab.predictors.web.sdm.base module benchstab.predictors.web.sdm.file module benchstab.predictors.web.sdm.id module benchstab.predictors.web.sride.base module benchstab.predictors.web.sride.file module benchstab.predictors.web.sride.id module benchstab.preprocessor module benchstab.utils.aminoacids module benchstab.utils.dataset module benchstab.utils.exceptions module benchstab.utils.html_parser module benchstab.utils.status module benchstab.utils.structure module BenchStabError blocking (benchstab.utils.status._Status attribute) (benchstab.utils.status.Authenticaton attribute) (benchstab.utils.status.NotStarted attribute) (benchstab.utils.status.Processing attribute) (benchstab.utils.status.Waiting attribute) blocking_statuses (benchstab.utils.dataset.PredictorDataset attribute)

C

chain (benchstab.preprocessor.PreprocessorRow attribute) classname (benchstab.predictors.base.PredictorHeader attribute) compute() (benchstab.predictors.base.BasePredictor method) concat() (benchstab.utils.dataset.PredictorDataset class method) ConnectionFailed (class in benchstab.utils.status)

create() (benchstab.utils.structure.Fasta class method) (benchstab.utils.structure.PDB class method) create_summary() (benchstab.preprocessor.Preprocessor class method) credentials (benchstab.predictors.base.BasePredictor attribute) (benchstab.predictors.web.popmusic.base._PoPMuSiC attribute) CUPSATPdbID (class in benchstab.predictors.web.cupsat.id)

D

DatasetError DatasetRow (class in benchstab.utils.dataset) DDGunPdbFile (class in benchstab.predictors.web.ddgun.file) DDGunPdbID (class in benchstab.predictors.web.ddgun.id) DDGunSequence (class in benchstab.predictors.web.ddgun.sequence) DDMutPdbFile (class in benchstab.predictors.web.biosiglab.file) DDMutPdbID (class in benchstab.predictors.web.biosiglab.id) DeepDDGPdbFile (class in benchstab.predictors.web.deepddg.file) DeepDDGPdbID (class in benchstab.predictors.web.deepddg.id) default_get_handler() (benchstab.predictors.base.BaseGetPredictor method) (benchstab.predictors.web.biosiglab.base._BiosigAPIPredictor method) (benchstab.predictors.web.ddgun.base._DDGun method) (benchstab.predictors.web.deepddg.base._DeepDDG method) (benchstab.predictors.web.imutant.base._IMutant2 method) (benchstab.predictors.web.imutant.base._IMutant3 method) (benchstab.predictors.web.inps.base._INPS method) (benchstab.predictors.web.maestro.base._Maestro method) (benchstab.predictors.web.mcsm.base._mCSM method) (benchstab.predictors.web.popmusic.base._PoPMuSiC method) (benchstab.predictors.web.premps.base._PremPS method) (benchstab.predictors.web.saafec.base._SAAFEC method) (benchstab.predictors.web.sdm.base._SDM method)

default_post_handler() (benchstab.predictors.base.BasePostPredictor method) (benchstab.predictors.web.automute.base._AutoMute method) (benchstab.predictors.web.biosiglab.base._BiosigAPIPredictor method) (benchstab.predictors.web.cupsat.base._CUPSAT method) (benchstab.predictors.web.ddgun.base._DDGun method) (benchstab.predictors.web.deepddg.base._DeepDDG method) (benchstab.predictors.web.duet.base._DUET method) (benchstab.predictors.web.imutant.base._IMutant3 method) (benchstab.predictors.web.inps.base._INPS method) (benchstab.predictors.web.maestro.base._Maestro method) (benchstab.predictors.web.mcsm.base._mCSM method) (benchstab.predictors.web.mupro.base._MUpro method) (benchstab.predictors.web.ponsol.base._PONSol2 method) (benchstab.predictors.web.popmusic.base._PoPMuSiC method) (benchstab.predictors.web.premps.base._PremPS method) (benchstab.predictors.web.saafec.base._SAAFEC method) (benchstab.predictors.web.sdm.base._SDM method) (benchstab.predictors.web.sride.base._SRide method) DUETPdbFile (class in benchstab.predictors.web.duet.file) DUETPdbID (class in benchstab.predictors.web.duet.id) Dynamut2PdbFile (class in benchstab.predictors.web.biosiglab.file) Dynamut2PdbID (class in benchstab.predictors.web.biosiglab.id)

E

email (benchstab.predictors.base.BaseCredentials attribute) experimental_methods (benchstab.predictors.web.cupsat.base._CUPSAT attribute)

extract_chain() (benchstab.utils.structure.Fasta class method) extract_fasta_from_pdb() (benchstab.preprocessor.Preprocessor method)

F

Failed (class in benchstab.utils.status) fasta (benchstab.preprocessor.PreprocessorRow attribute) (benchstab.utils.dataset.DatasetRow property) Fasta (class in benchstab.utils.structure) fasta_mutation (benchstab.preprocessor.PreprocessorRow attribute) (benchstab.utils.dataset.DatasetRow property) File (class in benchstab.utils.structure) filter_predictors() (benchstab.client.BenchStab method) Finished (class in benchstab.utils.status) format_mutation() (benchstab.predictors.base.BasePredictor method) (benchstab.predictors.web.biosiglab.base._BiosigAPIPredictor method) (benchstab.predictors.web.deepddg.base._DeepDDG method) (benchstab.predictors.web.maestro.base._Maestro method) (benchstab.predictors.web.mcsm.base._mCSM method) (benchstab.predictors.web.popmusic.base._PoPMuSiC method) (benchstab.predictors.web.premps.base._PremPS method) (benchstab.predictors.web.saafec.base._SAAFEC method) (benchstab.predictors.web.sdm.base._SDM method)

format_to_output() (benchstab.utils.dataset.PredictorDataset method) from_file() (benchstab.utils.structure.Fasta class method) (benchstab.utils.structure.PDB class method) from_id() (benchstab.utils.structure.PDB class method) from_pdb_file() (benchstab.utils.structure.Fasta class method) from_rcsb_by_pdb_id() (benchstab.utils.structure.Fasta class method) from_uniprot() (benchstab.utils.structure.Fasta class method) from_uniprot_by_pdb_id() (benchstab.utils.structure.Fasta class method)

G

gather_results() (benchstab.client.BenchStab method) get() (benchstab.predictors.base.BasePredictor method) get_charge() (benchstab.utils.aminoacids.Mapper class method) get_chemical_properties() (benchstab.utils.aminoacids.Mapper class method) get_from_url_by_id() (benchstab.utils.structure.File class method) get_hydropathy() (benchstab.utils.aminoacids.Mapper class method) get_payload() (benchstab.predictors.base.BaseCredentials method) (benchstab.predictors.web.popmusic.base.PoPMuSiCCredentials method)

get_polarity() (benchstab.utils.aminoacids.Mapper class method) get_results() (benchstab.predictors.base.BasePredictor method) get_sequence() (benchstab.utils.dataset.PredictorDataset method) get_volume_size() (benchstab.utils.aminoacids.Mapper class method) group_mutations (benchstab.predictors.base.PredictorFlags attribute) group_mutations_by (benchstab.predictors.base.PredictorFlags attribute)

H

header() (benchstab.predictors.base.BasePredictor class method)

HTMLParser (class in benchstab.utils.html_parser) HTMLParserError

I

identifier (benchstab.preprocessor.PreprocessorRow attribute) IMutant2PdbID (class in benchstab.predictors.web.imutant.id) IMutant2Sequence (class in benchstab.predictors.web.imutant.sequence) IMutant3PdbFile (class in benchstab.predictors.web.imutant.file) IMutant3PdbID (class in benchstab.predictors.web.imutant.id) IMutant3Sequence (class in benchstab.predictors.web.imutant.sequence)

INPSPdbID (class in benchstab.predictors.web.inps.id) input_type (benchstab.predictors.base.PredictorHeader attribute) is_available() (benchstab.predictors.base.BasePredictor class method) is_available_async() (benchstab.predictors.base.BasePredictor class method) is_blocking_status() (benchstab.utils.dataset.PredictorDataset method) is_valid() (benchstab.preprocessor.PreprocessorRow method)

L

logger (benchstab.preprocessor.Preprocessor attribute) (benchstab.utils.dataset.PredictorDataset property) (benchstab.utils.structure.Fasta attribute) (benchstab.utils.structure.PDB attribute)

login() (benchstab.predictors.base.BaseAuthentication method) (benchstab.predictors.base.BasePredictor method) (benchstab.predictors.web.popmusic.base._PoPMuSiC method) login_handler() (benchstab.predictors.base.BaseAuthentication method)

M

MaestroPdbID (class in benchstab.predictors.web.maestro.id) make_form() (benchstab.predictors.base.BasePredictor method) Mapper (class in benchstab.utils.aminoacids) mCSMPdbFile (class in benchstab.predictors.web.mcsm.file) message (benchstab.utils.status._Status attribute) (benchstab.utils.status.AuthenticationFailed attribute) (benchstab.utils.status.Authenticaton attribute) (benchstab.utils.status.ConnectionFailed attribute) (benchstab.utils.status.Failed attribute) (benchstab.utils.status.Finished attribute) (benchstab.utils.status.NotStarted attribute) (benchstab.utils.status.ParsingFailed attribute) (benchstab.utils.status.PredictorNotAvailable attribute) (benchstab.utils.status.Processing attribute) (benchstab.utils.status.Timeout attribute) (benchstab.utils.status.Waiting attribute) model_types (benchstab.predictors.web.automute.base._AutoMute attribute) module benchstab.client benchstab.predictors.base benchstab.predictors.web.automute.base benchstab.predictors.web.automute.id benchstab.predictors.web.biosiglab.base benchstab.predictors.web.biosiglab.file benchstab.predictors.web.biosiglab.id benchstab.predictors.web.cupsat.base benchstab.predictors.web.cupsat.id benchstab.predictors.web.ddgun.base benchstab.predictors.web.ddgun.file benchstab.predictors.web.ddgun.id benchstab.predictors.web.ddgun.sequence benchstab.predictors.web.deepddg.base benchstab.predictors.web.deepddg.file benchstab.predictors.web.deepddg.id benchstab.predictors.web.duet.base benchstab.predictors.web.duet.file benchstab.predictors.web.duet.id benchstab.predictors.web.imutant.base benchstab.predictors.web.imutant.file benchstab.predictors.web.imutant.id benchstab.predictors.web.imutant.sequence benchstab.predictors.web.inps.base benchstab.predictors.web.inps.id benchstab.predictors.web.maestro.base benchstab.predictors.web.maestro.id benchstab.predictors.web.mcsm.base benchstab.predictors.web.mcsm.file benchstab.predictors.web.mupro.base benchstab.predictors.web.mupro.file benchstab.predictors.web.mupro.sequence benchstab.predictors.web.ponsol.base benchstab.predictors.web.ponsol.sequence benchstab.predictors.web.popmusic.base benchstab.predictors.web.popmusic.id benchstab.predictors.web.premps.base benchstab.predictors.web.premps.file benchstab.predictors.web.premps.id benchstab.predictors.web.saafec.base benchstab.predictors.web.saafec.sequence benchstab.predictors.web.sdm.base benchstab.predictors.web.sdm.file benchstab.predictors.web.sdm.id benchstab.predictors.web.sride.base benchstab.predictors.web.sride.file benchstab.predictors.web.sride.id benchstab.preprocessor benchstab.utils.aminoacids benchstab.utils.dataset benchstab.utils.exceptions benchstab.utils.html_parser benchstab.utils.status benchstab.utils.structure

MuproPdbFile (class in benchstab.predictors.web.mupro.file) MuproSequence (class in benchstab.predictors.web.mupro.sequence) mutation (benchstab.preprocessor.PreprocessorRow attribute) (benchstab.utils.dataset.DatasetRow property) mutation_column (benchstab.predictors.base.PredictorHeader attribute) mutation_delimiter (benchstab.predictors.base.PredictorFlags attribute)

N

name (benchstab.predictors.base.PredictorHeader attribute)

NotStarted (class in benchstab.utils.status)

O

one_to_three_letter() (benchstab.utils.aminoacids.Mapper class method)

open() (benchstab.utils.structure.File class method)

P

parse() (benchstab.preprocessor.Preprocessor method) parse_fasta() (benchstab.preprocessor.Preprocessor method) parse_fasta_mutation() (benchstab.preprocessor.Preprocessor method) parse_line() (benchstab.preprocessor.Preprocessor method) parse_mutation() (benchstab.preprocessor.Preprocessor method) parse_struct() (benchstab.preprocessor.Preprocessor method) ParsingFailed (class in benchstab.utils.status) password (benchstab.predictors.base.BaseCredentials attribute) PDB (class in benchstab.utils.structure) pdb_models (benchstab.predictors.web.premps.base._PremPS attribute) pdbfile_predictors (benchstab.client.BenchStab attribute) pdbid_predictors (benchstab.client.BenchStab attribute) ph (benchstab.preprocessor.PreprocessorRow attribute) (benchstab.utils.dataset.DatasetRow property) PONSol2Sequence (class in benchstab.predictors.web.ponsol.sequence) PoPMuSiCCredentials (class in benchstab.predictors.web.popmusic.base) PoPMuSiCPdbID (class in benchstab.predictors.web.popmusic.id) post() (benchstab.predictors.base.BasePredictor method) PredictorDataset (class in benchstab.utils.dataset) PredictorError PredictorFlags (class in benchstab.predictors.base) PredictorHeader (class in benchstab.predictors.base) PredictorNotAvailable (class in benchstab.utils.status) PremPSPdbFile (class in benchstab.predictors.web.premps.file) PremPSPdbID (class in benchstab.predictors.web.premps.id) prepare_mutation() (benchstab.predictors.base.BasePredictor method) prepare_payload() (benchstab.predictors.base.BasePredictor method) (benchstab.predictors.web.automute.base._AutoMute method) (benchstab.predictors.web.biosiglab.file.DDMutPdbFile method) (benchstab.predictors.web.biosiglab.file.Dynamut2PdbFile method) (benchstab.predictors.web.biosiglab.id.DDMutPdbID method) (benchstab.predictors.web.biosiglab.id.Dynamut2PdbID method) (benchstab.predictors.web.cupsat.base._CUPSAT method) (benchstab.predictors.web.ddgun.file.DDGunPdbFile method) (benchstab.predictors.web.ddgun.id.DDGunPdbID method) (benchstab.predictors.web.ddgun.sequence.DDGunSequence method) (benchstab.predictors.web.deepddg.file.DeepDDGPdbFile method) (benchstab.predictors.web.deepddg.id.DeepDDGPdbID method) (benchstab.predictors.web.duet.file.DUETPdbFile method) (benchstab.predictors.web.duet.id.DUETPdbID method) (benchstab.predictors.web.imutant.file.IMutant3PdbFile method) (benchstab.predictors.web.imutant.id.IMutant2PdbID method) (benchstab.predictors.web.imutant.id.IMutant3PdbID method) (benchstab.predictors.web.imutant.sequence.IMutant2Sequence method) (benchstab.predictors.web.imutant.sequence.IMutant3Sequence method) (benchstab.predictors.web.inps.id.INPSPdbID method) (benchstab.predictors.web.maestro.base._Maestro method) (benchstab.predictors.web.mcsm.file.mCSMPdbFile method) (benchstab.predictors.web.mupro.file.MuproPdbFile method) (benchstab.predictors.web.mupro.sequence.MuproSequence method) (benchstab.predictors.web.ponsol.sequence.PONSol2Sequence method) (benchstab.predictors.web.premps.file.PremPSPdbFile method) (benchstab.predictors.web.premps.id.PremPSPdbID method) (benchstab.predictors.web.saafec.sequence.SAAFECSequence method) (benchstab.predictors.web.sdm.file.SDMPdbFile method) (benchstab.predictors.web.sdm.id.SDMPdbID method) (benchstab.predictors.web.sride.file.SRidePdbFile method) (benchstab.predictors.web.sride.id.SRidePdbID method)

Preprocessor (class in benchstab.preprocessor) PreprocessorError PreprocessorRow (class in benchstab.preprocessor) print_summary() (benchstab.preprocessor.Preprocessor class method) process_result() (benchstab.predictors.base.BasePredictor method) Processing (class in benchstab.utils.status)

R

retrieve_result() (benchstab.predictors.base.BaseGetPredictor method) (benchstab.predictors.base.BasePredictor method) (benchstab.predictors.web.biosiglab.base._BiosigAPIPredictor method) (benchstab.predictors.web.maestro.base._Maestro method)

S

SAAFECSequence (class in benchstab.predictors.web.saafec.sequence) save_results() (benchstab.client.BenchStab method) SDMPdbFile (class in benchstab.predictors.web.sdm.file) SDMPdbID (class in benchstab.predictors.web.sdm.id) send_query() (benchstab.predictors.base.BasePostPredictor method) (benchstab.predictors.base.BasePredictor method) (benchstab.predictors.web.inps.base._INPS method) (benchstab.predictors.web.maestro.base._Maestro method) (benchstab.predictors.web.ponsol.base._PONSol2 method) (benchstab.predictors.web.popmusic.base._PoPMuSiC method) (benchstab.predictors.web.premps.base._PremPS method) sequence_predictors (benchstab.client.BenchStab attribute) setup() (benchstab.predictors.base.BasePredictor method) SRidePdbFile (class in benchstab.predictors.web.sride.file)

SRidePdbID (class in benchstab.predictors.web.sride.id) start_timer() (benchstab.utils.dataset.PredictorDataset method) status (benchstab.utils.status._Status attribute) (benchstab.utils.status.AuthenticationFailed attribute) (benchstab.utils.status.Authenticaton attribute) (benchstab.utils.status.ConnectionFailed attribute) (benchstab.utils.status.Failed attribute) (benchstab.utils.status.Finished attribute) (benchstab.utils.status.NotStarted attribute) (benchstab.utils.status.ParsingFailed attribute) (benchstab.utils.status.PredictorNotAvailable attribute) (benchstab.utils.status.Processing attribute) (benchstab.utils.status.Timeout attribute) (benchstab.utils.status.Waiting attribute)

T

temperature (benchstab.preprocessor.PreprocessorRow attribute) (benchstab.utils.dataset.DatasetRow property) three_to_one_letter() (benchstab.utils.aminoacids.Mapper class method) Timeout (class in benchstab.utils.status)

to_bytes() (benchstab.utils.structure.File method) to_dict() (benchstab.preprocessor.PreprocessorRow method) to_octet_stream() (benchstab.utils.structure.File method) to_plain_text() (benchstab.utils.structure.File method)

U

update_status() (benchstab.utils.dataset.PredictorDataset method) update_statuses (benchstab.utils.dataset.PredictorDataset attribute) url (benchstab.predictors.base.BaseCredentials attribute) (benchstab.predictors.base.BasePredictor attribute) (benchstab.predictors.web.automute.base._AutoMute attribute) (benchstab.predictors.web.biosiglab.file.DDMutPdbFile attribute) (benchstab.predictors.web.biosiglab.file.Dynamut2PdbFile attribute) (benchstab.predictors.web.biosiglab.id.DDMutPdbID attribute) (benchstab.predictors.web.biosiglab.id.Dynamut2PdbID attribute) (benchstab.predictors.web.cupsat.base._CUPSAT attribute) (benchstab.predictors.web.ddgun.base._DDGun attribute) (benchstab.predictors.web.deepddg.base._DeepDDG attribute) (benchstab.predictors.web.duet.base._DUET attribute) (benchstab.predictors.web.imutant.base._IMutant2 attribute) (benchstab.predictors.web.imutant.base._IMutant3 attribute) (benchstab.predictors.web.inps.base._INPS attribute) (benchstab.predictors.web.maestro.base._Maestro attribute) (benchstab.predictors.web.mcsm.base._mCSM attribute) (benchstab.predictors.web.mupro.base._MUpro attribute) (benchstab.predictors.web.ponsol.base._PONSol2 attribute) (benchstab.predictors.web.popmusic.base._PoPMuSiC attribute) (benchstab.predictors.web.premps.base._PremPS attribute) (benchstab.predictors.web.saafec.base._SAAFEC attribute) (benchstab.predictors.web.sdm.base._SDM attribute) (benchstab.predictors.web.sride.base._SRide attribute)

username (benchstab.predictors.base.BaseCredentials attribute)

W

Waiting (class in benchstab.utils.status) webkit (benchstab.predictors.base.PredictorFlags attribute)

with_pandas() (benchstab.utils.html_parser.HTMLParser method) with_xpath() (benchstab.utils.html_parser.HTMLParser method)