Index

A

acquire() (MSMetaEnhancer.libs.utils.Throttler.Throttler method) add_coverage_after() (MSMetaEnhancer.libs.utils.Logger.Logger method) add_coverage_before() (MSMetaEnhancer.libs.utils.Logger.Logger method) add_filehandler() (MSMetaEnhancer.libs.utils.Logger.Logger method) add_logs() (MSMetaEnhancer.libs.utils.Logger.Logger method)

adjust_throttling() (MSMetaEnhancer.libs.converters.web.PubChem.PubChem method) annotate() (MSMetaEnhancer.libs.Annotator.Annotator method) annotate_spectra() (MSMetaEnhancer.app.Application method) Annotator (class in MSMetaEnhancer.libs.Annotator) Application (class in MSMetaEnhancer.app)

B

BridgeDb (class in MSMetaEnhancer.libs.converters.web.BridgeDb)

build_converters() (MSMetaEnhancer.libs.utils.ConverterBuilder.ConverterBuilder static method)

C

call_service() (MSMetaEnhancer.libs.converters.web.BridgeDb.BridgeDb method) (MSMetaEnhancer.libs.converters.web.IDSM.IDSM method) (MSMetaEnhancer.libs.converters.web.PubChem.PubChem method) casno_to_inchi() (MSMetaEnhancer.libs.converters.web.CTS.CTS method) casno_to_inchikey() (MSMetaEnhancer.libs.converters.web.CTS.CTS method) casno_to_smiles() (MSMetaEnhancer.libs.converters.web.CIR.CIR method) check_service() (MSMetaEnhancer.libs.utils.Monitor.Monitor static method) CIR (class in MSMetaEnhancer.libs.converters.web.CIR) compound_name_to_inchikey() (MSMetaEnhancer.libs.converters.web.CTS.CTS method) ComputeConverter (class in MSMetaEnhancer.libs.converters.compute.ComputeConverter) ConversionNotSupported convert() (MSMetaEnhancer.libs.Converter.Converter method) (MSMetaEnhancer.libs.converters.compute.ComputeConverter.ComputeConverter method) (MSMetaEnhancer.libs.converters.web.WebConverter.WebConverter method)

convert_to_jobs() (in module MSMetaEnhancer.libs.utils.Job) Converter (class in MSMetaEnhancer.libs.Converter) converter_name (MSMetaEnhancer.libs.Converter.Converter property) ConverterBuilder (class in MSMetaEnhancer.libs.utils.ConverterBuilder) converters (MSMetaEnhancer.libs.utils.ConverterBuilder.ConverterBuilder attribute) create_top_level_conversion_methods() (MSMetaEnhancer.libs.Converter.Converter method) create_top_level_method() (in module MSMetaEnhancer.libs.Converter) CTS (class in MSMetaEnhancer.libs.converters.web.CTS) curate_casno() (MSMetaEnhancer.libs.Curator.Curator method) curate_metadata() (MSMetaEnhancer.app.Application method) (MSMetaEnhancer.libs.Curator.Curator method) Curator (class in MSMetaEnhancer.libs.Curator)

D

Data (class in MSMetaEnhancer.libs.data.Data) DataAlreadyPresent

DataFrame (class in MSMetaEnhancer.libs.data.DataFrame) decrease_limit() (MSMetaEnhancer.libs.utils.Throttler.Throttler method)

E

execute_job_with_cache() (MSMetaEnhancer.libs.Annotator.Annotator method)

F

FAILURE_THRESHOLD (MSMetaEnhancer.libs.converters.web.WebConverter.WebConverter attribute) filter_invalid_metadata() (MSMetaEnhancer.libs.Curator.Curator static method) fix_cas_number() (MSMetaEnhancer.libs.Curator.Curator static method) flush() (MSMetaEnhancer.libs.utils.Throttler.Throttler method) formula_to_mw() (MSMetaEnhancer.libs.converters.compute.RDKit.RDKit method) from_chebiid() (MSMetaEnhancer.libs.converters.web.BridgeDb.BridgeDb method) from_chemspiderid() (MSMetaEnhancer.libs.converters.web.BridgeDb.BridgeDb method) from_hmdbid() (MSMetaEnhancer.libs.converters.web.BridgeDb.BridgeDb method) from_inchi() (MSMetaEnhancer.libs.converters.web.IDSM.IDSM method) (MSMetaEnhancer.libs.converters.web.PubChem.PubChem method) from_inchikey() (MSMetaEnhancer.libs.converters.web.CTS.CTS method) (MSMetaEnhancer.libs.converters.web.PubChem.PubChem method)

from_keggid() (MSMetaEnhancer.libs.converters.web.BridgeDb.BridgeDb method) from_name() (MSMetaEnhancer.libs.converters.web.IDSM.IDSM method) (MSMetaEnhancer.libs.converters.web.PubChem.PubChem method) from_pubchemid() (MSMetaEnhancer.libs.converters.web.BridgeDb.BridgeDb method) (MSMetaEnhancer.libs.converters.web.PubChem.PubChem method) from_smiles() (MSMetaEnhancer.libs.converters.compute.RDKit.RDKit method) from_wikidataid() (MSMetaEnhancer.libs.converters.web.BridgeDb.BridgeDb method) fuse_metadata() (MSMetaEnhancer.libs.data.Data.Data method) (MSMetaEnhancer.libs.data.DataFrame.DataFrame method) (MSMetaEnhancer.libs.data.Spectra.Spectra method)

G

get_base_url() (MSMetaEnhancer.libs.utils.Monitor.Monitor static method) get_conversion_functions() (MSMetaEnhancer.libs.Converter.Converter method)

get_metadata() (MSMetaEnhancer.libs.data.Data.Data method) (MSMetaEnhancer.libs.data.DataFrame.DataFrame method) (MSMetaEnhancer.libs.data.Spectra.Spectra method)

H

hmdbid_to_inchi() (MSMetaEnhancer.libs.converters.web.CTS.CTS method)

I

IDSM (class in MSMetaEnhancer.libs.converters.web.IDSM) inchi_to_canonical_smiles() (MSMetaEnhancer.libs.converters.compute.RDKit.RDKit method) inchi_to_formula() (MSMetaEnhancer.libs.converters.compute.RDKit.RDKit method) inchi_to_isomeric_smiles() (MSMetaEnhancer.libs.converters.compute.RDKit.RDKit method) inchi_to_smiles() (MSMetaEnhancer.libs.converters.web.CIR.CIR method) inchikey_to_casno() (MSMetaEnhancer.libs.converters.web.CIR.CIR method)

inchikey_to_formula() (MSMetaEnhancer.libs.converters.web.CIR.CIR method) inchikey_to_inchi() (MSMetaEnhancer.libs.converters.web.CIR.CIR method) inchikey_to_smiles() (MSMetaEnhancer.libs.converters.web.CIR.CIR method) increase_limit() (MSMetaEnhancer.libs.utils.Throttler.Throttler method) InvalidAttributeFormat iupac_name_to_inchi() (MSMetaEnhancer.libs.converters.web.IDSM.IDSM method)

J

Job (class in MSMetaEnhancer.libs.utils.Job)

join() (MSMetaEnhancer.libs.utils.Monitor.Monitor method)

L

load_data() (MSMetaEnhancer.app.Application method) (MSMetaEnhancer.libs.data.DataFrame.DataFrame method) (MSMetaEnhancer.libs.data.Spectra.Spectra method)

Logger (class in MSMetaEnhancer.libs.utils.Logger) loop_request() (MSMetaEnhancer.libs.converters.web.WebConverter.WebConverter method)

M

make_request() (MSMetaEnhancer.libs.converters.web.WebConverter.WebConverter method) Metrics (class in MSMetaEnhancer.libs.utils.Metrics) module MSMetaEnhancer.app MSMetaEnhancer.libs.Annotator MSMetaEnhancer.libs.Converter MSMetaEnhancer.libs.converters.compute.ComputeConverter MSMetaEnhancer.libs.converters.compute.RDKit MSMetaEnhancer.libs.converters.web.BridgeDb MSMetaEnhancer.libs.converters.web.CIR MSMetaEnhancer.libs.converters.web.CTS MSMetaEnhancer.libs.converters.web.IDSM MSMetaEnhancer.libs.converters.web.PubChem MSMetaEnhancer.libs.converters.web.WebConverter MSMetaEnhancer.libs.Curator MSMetaEnhancer.libs.data.Data MSMetaEnhancer.libs.data.DataFrame MSMetaEnhancer.libs.data.Spectra MSMetaEnhancer.libs.utils.ConverterBuilder MSMetaEnhancer.libs.utils.Errors MSMetaEnhancer.libs.utils.Job MSMetaEnhancer.libs.utils.Logger MSMetaEnhancer.libs.utils.Metrics MSMetaEnhancer.libs.utils.Monitor MSMetaEnhancer.libs.utils.Throttler Monitor (class in MSMetaEnhancer.libs.utils.Monitor) MSMetaEnhancer.app module MSMetaEnhancer.libs.Annotator module MSMetaEnhancer.libs.Converter module MSMetaEnhancer.libs.converters.compute.ComputeConverter module MSMetaEnhancer.libs.converters.compute.RDKit module

MSMetaEnhancer.libs.converters.web.BridgeDb module MSMetaEnhancer.libs.converters.web.CIR module MSMetaEnhancer.libs.converters.web.CTS module MSMetaEnhancer.libs.converters.web.IDSM module MSMetaEnhancer.libs.converters.web.PubChem module MSMetaEnhancer.libs.converters.web.WebConverter module MSMetaEnhancer.libs.Curator module MSMetaEnhancer.libs.data.Data module MSMetaEnhancer.libs.data.DataFrame module MSMetaEnhancer.libs.data.Spectra module MSMetaEnhancer.libs.utils.ConverterBuilder module MSMetaEnhancer.libs.utils.Errors module MSMetaEnhancer.libs.utils.Job module MSMetaEnhancer.libs.utils.Logger module MSMetaEnhancer.libs.utils.Metrics module MSMetaEnhancer.libs.utils.Monitor module MSMetaEnhancer.libs.utils.Throttler module

P

parse_attributes() (MSMetaEnhancer.libs.converters.web.BridgeDb.BridgeDb method) (MSMetaEnhancer.libs.converters.web.CTS.CTS method) (MSMetaEnhancer.libs.converters.web.IDSM.IDSM method) (MSMetaEnhancer.libs.converters.web.PubChem.PubChem method)

parse_single_response() (MSMetaEnhancer.libs.converters.web.CTS.CTS method) process_request() (MSMetaEnhancer.libs.converters.web.PubChem.PubChem method) (MSMetaEnhancer.libs.converters.web.WebConverter.WebConverter method) PubChem (class in MSMetaEnhancer.libs.converters.web.PubChem) pubchemid_to_hmdbid() (MSMetaEnhancer.libs.converters.web.PubChem.PubChem method)

Q

query_the_service() (MSMetaEnhancer.libs.converters.web.WebConverter.WebConverter method)

R

raise_circuitbreaker() (MSMetaEnhancer.libs.utils.Errors.ServiceNotAvailable static method) RDKit (class in MSMetaEnhancer.libs.converters.compute.RDKit)

register() (MSMetaEnhancer.libs.utils.ConverterBuilder.ConverterBuilder static method) retrieve_first() (MSMetaEnhancer.libs.converters.web.CIR.CIR static method) run() (MSMetaEnhancer.libs.utils.Monitor.Monitor method)

S

save_data() (MSMetaEnhancer.app.Application method) (MSMetaEnhancer.libs.data.DataFrame.DataFrame method) (MSMetaEnhancer.libs.data.Spectra.Spectra method) ServiceNotAvailable set_converters() (MSMetaEnhancer.libs.Annotator.Annotator method) (MSMetaEnhancer.libs.utils.Monitor.Monitor method) set_params() (MSMetaEnhancer.libs.utils.Metrics.Metrics method)

set_target_attributes() (MSMetaEnhancer.libs.utils.Logger.Logger method) setup() (MSMetaEnhancer.libs.utils.Logger.Logger method) smiles_to_formula() (MSMetaEnhancer.libs.converters.compute.RDKit.RDKit method) smiles_to_inchikey() (MSMetaEnhancer.libs.converters.web.CIR.CIR method) SourceAttributeNotAvailable Spectra (class in MSMetaEnhancer.libs.data.Spectra) spectra_eq() (in module MSMetaEnhancer.libs.data.Spectra)

T

TargetAttributeNotRetrieved

Throttler (class in MSMetaEnhancer.libs.utils.Throttler)

U

UnknownConverter UnknownFileFormat

UnknownResponse update_after_annotation() (MSMetaEnhancer.libs.utils.Metrics.Metrics method) update_before_annotation() (MSMetaEnhancer.libs.utils.Metrics.Metrics method)

V

validate() (MSMetaEnhancer.libs.utils.Job.Job method)

validate_converters() (MSMetaEnhancer.libs.utils.ConverterBuilder.ConverterBuilder static method)

W

WebConverter (class in MSMetaEnhancer.libs.converters.web.WebConverter)

write_metrics() (MSMetaEnhancer.libs.utils.Logger.Logger method)