biggr_models.handlers.advanced_search_handlers

Attributes

ALLOWED_SEARCH_ALPHABET
DATA_SOURCE_IDS
S_API

Classes

GenomeSearchHandler	Request handler that implements data tables (API) logic.
GeneSearchHandler	Request handler that implements data tables (API) logic.
UniversalMetaboliteSearchHandler	Request handler that implements data tables (API) logic.
MetaboliteReferenceSearchHandler	Request handler that implements data tables (API) logic.
MetaboliteAnnotationSearchHandler	Request handler that implements data tables (API) logic.
MetaboliteInChIKeySearchHandler	Request handler that implements data tables (API) logic.
UniversalReactionSearchHandler	Request handler that implements data tables (API) logic.
UniversalReactionReferenceSearchHandler	Request handler that implements data tables (API) logic.
UniversalReactionAnnotationSearchHandler	Request handler that implements data tables (API) logic.
UniversalReactionECSearchHandler	Request handler that implements data tables (API) logic.
ModelSearchHandler	Request handler that implements data tables (API) logic.
SearchResultsHandler	Base RequestHandler that handles standard requests.

Functions

agg_strings(x)
process_string_array(x)
get_data_source_id(session, bigg_id)

Module Contents

biggr_models.handlers.advanced_search_handlers.ALLOWED_SEARCH_ALPHABET = "abcdefghijklmnopqrstuvwxyzABCDEFGHIJKLMNOPQRSTUVWXYZ0123456789_+-()[]/:.,' &;{}=?`|#*^"

biggr_models.handlers.advanced_search_handlers.agg_strings(x)

biggr_models.handlers.advanced_search_handlers.process_string_array(x)

biggr_models.handlers.advanced_search_handlers.get_data_source_id(session: sqlalchemy.orm.Session, bigg_id: str)

biggr_models.handlers.advanced_search_handlers.DATA_SOURCE_IDS

class biggr_models.handlers.advanced_search_handlers.GenomeSearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Genomes'

search_query: str = ''

column_specs

post_filter(query)

return_data(search_query, *args, **kwargs)

class biggr_models.handlers.advanced_search_handlers.GeneSearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Genes'

search_query: str = ''

column_specs

post_filter(query)

return_data(search_query, *args, **kwargs)

class biggr_models.handlers.advanced_search_handlers.UniversalMetaboliteSearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Universal Metabolites'

search_query: str = ''

column_specs

pre_filter(query)

post_filter(query)

return_data(search_query, *args, **kwargs)

class biggr_models.handlers.advanced_search_handlers.MetaboliteReferenceSearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Metabolites via Reference'

search_query: str = ''

column_specs

pre_filter(query)

post_filter(query)

return_data(search_query, *args, **kwargs)

class biggr_models.handlers.advanced_search_handlers.MetaboliteAnnotationSearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Metabolites via Annotation'

search_query: str = ''

data_source: str = ''

column_specs

pre_filter(query)

post_filter(query)

return_data(search_query, *args, **kwargs)

class biggr_models.handlers.advanced_search_handlers.MetaboliteInChIKeySearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Metabolites by InChIKey'

search_query: str = ''

data_source: str = ''

column_specs

pre_filter(query)

post_filter(query)

parse_inchi_key(search_query)

return_data(search_query, *args, **kwargs)

class biggr_models.handlers.advanced_search_handlers.UniversalReactionSearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Universal Reactions'

search_query: str = ''

column_specs

pre_filter(query)

post_filter(query)

return_data(search_query, *args, **kwargs)

class biggr_models.handlers.advanced_search_handlers.UniversalReactionReferenceSearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Reactions via Reference'

search_query: str = ''

column_specs

pre_filter(query)

post_filter(query)

return_data(search_query, *args, **kwargs)

class biggr_models.handlers.advanced_search_handlers.UniversalReactionAnnotationSearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Reactions via Annotation'

search_query: str = ''

data_source: str = ''

column_specs

pre_filter(query)

post_filter(query)

return_data(search_query, *args, **kwargs)

class biggr_models.handlers.advanced_search_handlers.UniversalReactionECSearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Reactions via EC'

search_query: str = ''

data_source: str = ''

column_specs

pre_filter(query)

post_filter(query)

return_data(search_query, *args, **kwargs)

class biggr_models.handlers.advanced_search_handlers.ModelSearchHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.DataHandler

Request handler that implements data tables (API) logic.

title = 'Models'

search_query: str = ''

column_specs

post_filter(query)

return_data(search_query, *args, **kwargs)

biggr_models.handlers.advanced_search_handlers.S_API = '/api/v3/search'

class biggr_models.handlers.advanced_search_handlers.SearchResultsHandler(application: Application, request: tornado.httputil.HTTPServerRequest, **kwargs: Any)

Bases: biggr_models.handlers.utils.BaseHandler

Base RequestHandler that handles standard requests.

template

clean_search_query(search_query)

build_special_tab_page(search_query)

get(search_query)