Index

A

about() (in module crate_anon.crateweb.core.views) AbstractContactRequestForm (class in crate_anon.crateweb.consent.forms) Ace (class in crate_anon.nlp_manager.parse_cognitive) AceValidator (class in crate_anon.nlp_manager.parse_cognitive) activate() (crate_anon.crateweb.research.models.Highlight method) (crate_anon.crateweb.research.models.PatientExplorer method) (crate_anon.crateweb.research.models.Query method) add() (crate_anon.anonymise.models.OptOutMpid class method) (crate_anon.anonymise.models.OptOutPid class method) add_arguments() (crate_anon.crateweb.consent.management.commands.email_rdbm.Command method) (crate_anon.crateweb.consent.management.commands.fetch_optouts.Command method) (crate_anon.crateweb.consent.management.commands.lookup_consent.Command method) (crate_anon.crateweb.consent.management.commands.lookup_patient.Command method) (crate_anon.crateweb.core.management.commands.runcpserver.Command method) add_bulk_source_index_request() (crate_anon.preprocess.ddhint.DDHint method) add_child() (crate_anon.crateweb.core.utils.JavascriptBranchNode method) (crate_anon.crateweb.core.utils.JavascriptTree method) add_columns() (in module crate_anon.common.sql) add_file() (crate_anon.anonymise.scrub.WordList method) add_file_timestamp_to_url_query() (in module crate_anon.crateweb.research.archive_backend) add_from() (crate_anon.common.sql.ViewMaker method) add_geography_to_view() (in module crate_anon.preprocess.preprocess_pcmis) add_index_only() (in module crate_anon.preprocess.rio_view_func) add_indexes() (in module crate_anon.common.sql) add_lines_after_trigger() (in module crate_anon.nlp_manager.build_medex_itself) add_lines_if_not_in() (in module crate_anon.nlp_manager.build_medex_itself) add_output_column() (crate_anon.crateweb.research.models.PatientMultiQuery method) add_patient_condition() (crate_anon.crateweb.research.models.PatientMultiQuery method) add_postcode_geography_view() (in module crate_anon.preprocess.preprocess_rio) add_processor_to_request() (crate_anon.nlp_manager.cloud_request.CloudRequestProcess method) add_select() (crate_anon.common.sql.ViewMaker method) add_source_index_request() (crate_anon.preprocess.ddhint.DDHint method) add_src_hash (crate_anon.anonymise.ddr.DataDictionaryRow attribute) add_text() (crate_anon.nlp_manager.cloud_request.CloudRequestProcess method) add_to_select() (in module crate_anon.crateweb.research.sql_writer) add_value() (crate_anon.anonymise.scrub.PersonalizedScrubber method) add_where() (crate_anon.common.sql.ViewMaker method) add_word() (crate_anon.anonymise.scrub.WordList method) AddHighlightForm (class in crate_anon.crateweb.research.forms) addition_only (crate_anon.anonymise.ddr.DataDictionaryRow attribute) AddOnlyModelAdmin (class in crate_anon.crateweb.extra.admin) AddQueryForm (class in crate_anon.crateweb.research.forms) all_crate_python_processors_nlprp_processor_info() (in module crate_anon.nlp_manager.all_processors) all_full_queries (crate_anon.crateweb.research.models.PatientMultiQuery attribute) all_parser_classes() (in module crate_anon.nlp_manager.all_processors) all_queries() (crate_anon.crateweb.research.models.PatientExplorer method) (crate_anon.crateweb.research.models.PatientMultiQuery method)

all_queries_specific_patients() (crate_anon.crateweb.research.models.PatientMultiQuery method) all_tablemaker_classes() (in module crate_anon.nlp_manager.all_processors) all_text_from_pid() (in module crate_anon.crateweb.research.views) all_text_from_pid_with_db() (in module crate_anon.crateweb.research.views) AllStaffReadOnlyModelAdmin (class in crate_anon.crateweb.extra.admin) alter() (crate_anon.anonymise.altermethod.AlterMethod method) alter_method (crate_anon.anonymise.ddr.DataDictionaryRow attribute) AlterMethod (class in crate_anon.anonymise.altermethod) ALTERMETHOD (class in crate_anon.anonymise.constants) anonymise() (in module crate_anon.anonymise.anonymise) archive_attachment() (in module crate_anon.crateweb.research.views) archive_attachment_url() (in module crate_anon.crateweb.research.archive_backend) archive_misconfigured_response() (in module crate_anon.crateweb.research.archive_backend) archive_root_url() (in module crate_anon.crateweb.research.archive_backend) archive_static() (in module crate_anon.crateweb.research.views) archive_static_url() (in module crate_anon.crateweb.research.archive_backend) archive_template() (in module crate_anon.crateweb.research.views) archive_template_url() (in module crate_anon.crateweb.research.archive_backend) ArchiveAttachmentAudit (class in crate_anon.crateweb.research.models) ArchiveAttachmentAudit.DoesNotExist ArchiveAttachmentAudit.MultipleObjectsReturned ArchiveAttachmentAuditMgrAdmin (class in crate_anon.crateweb.core.admin) ArchiveContextKeys (class in crate_anon.crateweb.research.archive_backend) ArchiveTemplateAudit (class in crate_anon.crateweb.research.models) ArchiveTemplateAudit.DoesNotExist ArchiveTemplateAudit.MultipleObjectsReturned ArchiveTemplateAuditMgrAdmin (class in crate_anon.crateweb.core.admin) as_ordered_dict() (crate_anon.crateweb.research.models.Highlight static method) assemble_units() (in module crate_anon.nlp_manager.regex_units) assert_correct() (crate_anon.linkage.fuzzy_id_match.TestCondition method) assert_freq_info() (crate_anon.anonymise.fetch_wordlists.NameInfo method) assert_view_has_same_num_rows() (in module crate_anon.common.sql) at_start_wb() (in module crate_anon.nlp_manager.regex_func) at_wb_start_end() (in module crate_anon.nlp_manager.regex_func) audit() (crate_anon.crateweb.research.models.PatientExplorer method) (crate_anon.crateweb.research.models.Query method) audit_archive_attachment() (in module crate_anon.crateweb.research.archive_backend) audit_archive_template() (in module crate_anon.crateweb.research.archive_backend) auto_delete_emailattachment_files_on_change() (in module crate_anon.crateweb.consent.models) auto_delete_emailattachment_files_on_delete() (in module crate_anon.crateweb.consent.models) auto_delete_leaflet_files_on_change() (in module crate_anon.crateweb.consent.models) auto_delete_leaflet_files_on_delete() (in module crate_anon.crateweb.consent.models) auto_delete_letter_files_on_change() (in module crate_anon.crateweb.consent.models) auto_delete_letter_files_on_delete() (in module crate_anon.crateweb.consent.models) auto_delete_study_files_on_change() (in module crate_anon.crateweb.consent.models) auto_delete_study_files_on_delete() (in module crate_anon.crateweb.consent.models)

B

baseline_log_odds_same_person (crate_anon.linkage.fuzzy_id_match.MatchConfig attribute) BaseNlpParser (class in crate_anon.nlp_manager.base_nlp_parser) basetype (crate_anon.crateweb.research.research_db_info.ColumnInfo attribute) Basophils (class in crate_anon.nlp_manager.parse_haematology) BasophilsValidator (class in crate_anon.nlp_manager.parse_haematology) bayes_compare() (in module crate_anon.linkage.fuzzy_id_match) being_scrubbed() (crate_anon.anonymise.ddr.DataDictionaryRow method) BlankHighlightForm (class in crate_anon.crateweb.research.forms) BlankQueryForm (class in crate_anon.crateweb.research.forms) BlobDoc (class in crate_anon.anonymise.make_demo_database)

Bmi (class in crate_anon.nlp_manager.parse_clinical) BmiValidator (class in crate_anon.nlp_manager.parse_clinical) Bp (class in crate_anon.nlp_manager.parse_clinical) BpValidator (class in crate_anon.nlp_manager.parse_clinical) BUA (class in crate_anon.preprocess.postcodes) BUASD (class in crate_anon.preprocess.postcodes) build() (crate_anon.anonymise.scrub.WordList method) build_regex() (crate_anon.anonymise.scrub.NonspecificScrubber method) build_regexes() (crate_anon.anonymise.scrub.PersonalizedScrubber method) bulk_hash() (in module crate_anon.linkage.bulk_hash)

C

cache_load() (in module crate_anon.linkage.fuzzy_id_match) cache_save() (in module crate_anon.linkage.fuzzy_id_match) cached_funcs() (crate_anon.anonymise.dd.DataDictionary method) calc_approaches_in_past_year() (crate_anon.crateweb.consent.models.ContactRequest method) can_communicate_directly() (crate_anon.crateweb.research.research_db_info.SingleResearchDatabase method) cancel_request() (in module crate_anon.nlp_manager.nlp_manager) CASWard (class in crate_anon.preprocess.postcodes) CCG (class in crate_anon.preprocess.postcodes) charity_report() (in module crate_anon.crateweb.consent.views) CharityPaymentRecord (class in crate_anon.crateweb.consent.models) CharityPaymentRecord.DoesNotExist CharityPaymentRecord.MultipleObjectsReturned CharityPaymentRecordMgrAdmin (class in crate_anon.crateweb.core.admin) check_against_source_db() (crate_anon.anonymise.dd.DataDictionary method) check_if_ready() (crate_anon.nlp_manager.cloud_request.CloudRequestProcess method) check_password() (in module crate_anon.nlp_webserver.security) check_prohibited_fieldnames() (crate_anon.anonymise.ddr.DataDictionaryRow method) check_valid() (crate_anon.anonymise.config.Config method) (crate_anon.anonymise.dd.DataDictionary method) (crate_anon.anonymise.ddr.DataDictionaryRow method) cherrypy() (in module crate_anon.nlp_webserver.wsgi_launchers) CHP (class in crate_anon.preprocess.postcodes) classname() (crate_anon.nlp_manager.base_nlp_parser.TableMaker class method) clean() (crate_anon.crateweb.consent.forms.AbstractContactRequestForm method) (crate_anon.crateweb.core.admin.ConsentModeAdminForm method) (crate_anon.crateweb.core.admin.PatientResponseAdminForm method) (crate_anon.crateweb.research.forms.QueryBuilderForm method) (crate_anon.crateweb.research.forms.SQLHelperFindAnywhereForm method) clear_cache() (crate_anon.anonymise.scrub.PersonalizedScrubber method) (crate_anon.anonymise.scrub.WordList method) clear_caches() (crate_anon.anonymise.dd.DataDictionary method) clear_output_columns() (crate_anon.crateweb.research.models.PatientMultiQuery method) clear_patient_conditions() (crate_anon.crateweb.research.models.PatientMultiQuery method) cli_lookup_consent() (in module crate_anon.crateweb.consent.management.commands.lookup_consent) cli_lookup_patient() (in module crate_anon.crateweb.consent.management.commands.lookup_patient) ClinicalDatabaseType (class in crate_anon.crateweb.config.constants) clinician_address_components() (crate_anon.crateweb.consent.models.PatientLookupBase method) clinician_address_components_str() (crate_anon.crateweb.consent.models.PatientLookupBase method) clinician_initiated_contact_request() (in module crate_anon.crateweb.consent.views) clinician_name_address_str() (crate_anon.crateweb.consent.models.PatientLookupBase method) clinician_pack() (in module crate_anon.crateweb.consent.views) clinician_response_view() (in module crate_anon.crateweb.consent.views) clinician_salutation() (crate_anon.crateweb.consent.models.PatientLookupBase method) clinician_title_forename_surname() (crate_anon.crateweb.consent.models.PatientLookupBase method) ClinicianAllTextFromPidForm (class in crate_anon.crateweb.research.forms) ClinicianInfoHolder (class in crate_anon.crateweb.consent.models) ClinicianRespondedListFilter (class in crate_anon.crateweb.core.admin) ClinicianResponse (class in crate_anon.crateweb.consent.models) ClinicianResponse.DoesNotExist ClinicianResponse.MultipleObjectsReturned ClinicianResponseDevAdmin (class in crate_anon.crateweb.core.admin) ClinicianResponseForm (class in crate_anon.crateweb.consent.forms) ClinicianSubmitContactRequestForm (class in crate_anon.crateweb.consent.forms) Cloud (class in crate_anon.nlp_manager.cloud_parser) CloudConfig (class in crate_anon.nlp_manager.cloud_config) CloudNlpConfigKeys (class in crate_anon.nlp_manager.constants) CloudRequest (class in crate_anon.nlp_manager.cloud_request) CloudRequestListProcessors (class in crate_anon.nlp_manager.cloud_request) CloudRequestProcess (class in crate_anon.nlp_manager.cloud_request) CloudRequestQueueManagement (class in crate_anon.nlp_manager.cloud_request) CloudRunInfo (class in crate_anon.nlp_manager.cloud_run_info) coin() (in module crate_anon.anonymise.make_demo_database) colinfolist (crate_anon.crateweb.research.research_db_info.SingleResearchDatabase attribute) collapsible_div_contentdiv() (crate_anon.crateweb.research.html_functions.HtmlElementCounter method) coltype_length_if_text() (in module crate_anon.common.sql) column (crate_anon.common.sql.ColumnId attribute) column_id (crate_anon.common.sql.WhereCondition attribute) (crate_anon.crateweb.research.research_db_info.ColumnInfo attribute) column_id() (crate_anon.common.sql.SchemaId method) (crate_anon.common.sql.TableId method) column_present() (crate_anon.crateweb.research.research_db_info.SingleResearchDatabase method) ColumnId (class in crate_anon.common.sql) ColumnInfo (class in crate_anon.crateweb.research.research_db_info) columns_to_table_column_hierarchy() (in module crate_anon.common.sql) Command (class in crate_anon.crateweb.consent.management.commands.email_rdbm) (class in crate_anon.crateweb.consent.management.commands.fetch_optouts) (class in crate_anon.crateweb.consent.management.commands.lookup_consent) (class in crate_anon.crateweb.consent.management.commands.lookup_patient) (class in crate_anon.crateweb.consent.management.commands.populate) (class in crate_anon.crateweb.consent.management.commands.resubmit_unprocessed_tasks) (class in crate_anon.crateweb.consent.management.commands.test_email) (class in crate_anon.crateweb.core.management.commands.runcpserver) commit() (crate_anon.common.sql.TransactionSizeLimiter method) (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) commit_admindb() (in module crate_anon.anonymise.anonymise) commit_all() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) commit_and_announce() (in module crate_anon.preprocess.postcodes) commit_dest_db() (crate_anon.anonymise.config.Config method) commit_destdb() (in module crate_anon.anonymise.anonymise) common_context() (in module crate_anon.crateweb.core.context_processors) common_find_text() (in module crate_anon.crateweb.research.views) common_tense() (in module crate_anon.nlp_manager.regex_parser) compare_probands_to_sample() (in module crate_anon.linkage.fuzzy_id_match) compare_probands_to_sample_from_csv() (in module crate_anon.linkage.fuzzy_id_match) Comparison (class in crate_anon.linkage.fuzzy_id_match) compile_blob_mysql() (in module crate_anon.anonymise.make_demo_database) compile_regex() (in module crate_anon.nlp_manager.regex_func) compile_regex_dict() (in module crate_anon.nlp_manager.regex_func) Config (class in crate_anon.anonymise.config) configfail() (in module crate_anon.common.extendedconfigparser) ConsentAppConfig (class in crate_anon.crateweb.config.apps) ConsentMode (class in crate_anon.crateweb.consent.models) ConsentMode.DoesNotExist ConsentMode.MultipleObjectsReturned ConsentModeAdminForm (class in crate_anon.crateweb.core.admin) ConsentModeDevAdmin (class in crate_anon.crateweb.core.admin) ConsentModeInline (class in crate_anon.crateweb.core.admin) ConsentModeMgrAdmin (class in crate_anon.crateweb.core.admin) consider_withdrawal() (crate_anon.crateweb.consent.models.ConsentMode method) constant (crate_anon.anonymise.ddr.DataDictionaryRow attribute) contactable() (crate_anon.crateweb.consent.models.ClinicianInfoHolder method) ContactRequest (class in crate_anon.crateweb.consent.models) ContactRequest.DoesNotExist ContactRequest.MultipleObjectsReturned ContactRequestDevAdmin (class in crate_anon.crateweb.core.admin) ContactRequestMgrAdmin (class in crate_anon.crateweb.core.admin) ContactRequestResAdmin (class in crate_anon.crateweb.core.admin) contains() (crate_anon.anonymise.scrub.WordList method) contains_patient_info() (crate_anon.anonymise.ddr.DataDictionaryRow method) contains_vital_patient_info() (crate_anon.anonymise.ddr.DataDictionaryRow method) convert_date() (in module crate_anon.preprocess.postcodes) convert_float() (in module crate_anon.preprocess.postcodes) convert_int() (in module crate_anon.preprocess.postcodes) copy() (crate_anon.linkage.fuzzy_id_match.Person method) CoreAppConfig (class in crate_anon.crateweb.config.apps) count_rows() (in module crate_anon.anonymise.anonymise) Country (class in crate_anon.preprocess.postcodes) County1991 (class in crate_anon.preprocess.postcodes) County2010 (class in crate_anon.preprocess.postcodes) crate_anon.anonymise.__init__ (module) crate_anon.anonymise.altermethod (module) crate_anon.anonymise.anonregex (module) crate_anon.anonymise.anonymise (module) crate_anon.anonymise.anonymise_cli (module) crate_anon.anonymise.config (module) crate_anon.anonymise.config_singleton (module) crate_anon.anonymise.constants (module) crate_anon.anonymise.dbholder (module) crate_anon.anonymise.dd (module) crate_anon.anonymise.ddr (module) crate_anon.anonymise.eponyms (module) crate_anon.anonymise.fetch_wordlists (module) crate_anon.anonymise.launch_multiprocess_anonymiser (module) crate_anon.anonymise.make_demo_database (module) crate_anon.anonymise.models (module) crate_anon.anonymise.patient (module) crate_anon.anonymise.scrub (module) crate_anon.anonymise.test_anonymisation (module) crate_anon.anonymise.test_extract_text (module) crate_anon.common.__init__ (module) crate_anon.common.bugfix_flashtext (module) crate_anon.common.constants (module) crate_anon.common.extendedconfigparser (module) crate_anon.common.file_io (module) crate_anon.common.formatting (module) crate_anon.common.memsize (module) crate_anon.common.parallel (module) crate_anon.common.profiling (module) crate_anon.common.sql (module) crate_anon.common.stringfunc (module) crate_anon.crateweb.__init__ (module) crate_anon.crateweb.config.__init__ (module) crate_anon.crateweb.config.apps (module) crate_anon.crateweb.config.constants (module) crate_anon.crateweb.config.settings (module) crate_anon.crateweb.config.urls (module) crate_anon.crateweb.config.wsgi (module) crate_anon.crateweb.consent.__init__ (module) crate_anon.crateweb.consent.celery (module) crate_anon.crateweb.consent.forms (module) crate_anon.crateweb.consent.lookup (module) crate_anon.crateweb.consent.lookup_crs (module) crate_anon.crateweb.consent.lookup_dummy (module) crate_anon.crateweb.consent.lookup_rio (module) crate_anon.crateweb.consent.management.__init__ (module) crate_anon.crateweb.consent.management.commands.__init__ (module) crate_anon.crateweb.consent.management.commands.email_rdbm (module)

crate_anon.crateweb.consent.management.commands.fetch_optouts (module) crate_anon.crateweb.consent.management.commands.lookup_consent (module) crate_anon.crateweb.consent.management.commands.lookup_patient (module) crate_anon.crateweb.consent.management.commands.populate (module) crate_anon.crateweb.consent.management.commands.resubmit_unprocessed_tasks (module) crate_anon.crateweb.consent.management.commands.test_email (module) crate_anon.crateweb.consent.migrations.0001_initial (module) crate_anon.crateweb.consent.migrations.0002_auto_20160621_1511 (module) crate_anon.crateweb.consent.migrations.0003_auto_20160628_1301 (module) crate_anon.crateweb.consent.migrations.0004_auto_20160703_1530 (module) crate_anon.crateweb.consent.migrations.0005_auto_20170203_1348 (module) crate_anon.crateweb.consent.migrations.0006_auto_20170206_1617 (module) crate_anon.crateweb.consent.migrations.0007_auto_20170228_1052 (module) crate_anon.crateweb.consent.migrations.0008_auto_20170507_1218 (module) crate_anon.crateweb.consent.migrations.0009_auto_20180629_1132 (module) crate_anon.crateweb.consent.migrations.0010_auto_20180629_1238 (module) crate_anon.crateweb.consent.migrations.0011_auto_20181022_0801 (module) crate_anon.crateweb.consent.migrations.0012_auto_20181102_1335 (module) crate_anon.crateweb.consent.migrations.0013_auto_20181223_1124 (module) crate_anon.crateweb.consent.migrations.0014_contactrequest_rdbm_to_contact_pt (module) crate_anon.crateweb.consent.migrations.0015_auto_20190104_1255 (module) crate_anon.crateweb.consent.migrations.0016_auto_20190212_1118 (module) crate_anon.crateweb.consent.migrations.__init__ (module) crate_anon.crateweb.consent.models (module) crate_anon.crateweb.consent.storage (module) crate_anon.crateweb.consent.tasks (module) crate_anon.crateweb.consent.teamlookup (module) crate_anon.crateweb.consent.teamlookup_dummy (module) crate_anon.crateweb.consent.teamlookup_rio (module) crate_anon.crateweb.consent.utils (module) crate_anon.crateweb.consent.views (module) crate_anon.crateweb.core.__init__ (module) crate_anon.crateweb.core.admin (module) crate_anon.crateweb.core.auth_views (module) crate_anon.crateweb.core.constants (module) crate_anon.crateweb.core.context_processors (module) crate_anon.crateweb.core.management.__init__ (module) crate_anon.crateweb.core.management.commands.__init__ (module) crate_anon.crateweb.core.management.commands.runcpserver (module) crate_anon.crateweb.core.middleware (module) crate_anon.crateweb.core.utils (module) crate_anon.crateweb.core.views (module) crate_anon.crateweb.extra.__init__ (module) crate_anon.crateweb.extra.admin (module) crate_anon.crateweb.extra.pdf (module) crate_anon.crateweb.extra.salutation (module) crate_anon.crateweb.manage (module) crate_anon.crateweb.research.__init__ (module) crate_anon.crateweb.research.archive_backend (module) crate_anon.crateweb.research.archive_func (module) crate_anon.crateweb.research.forms (module) crate_anon.crateweb.research.html_functions (module) crate_anon.crateweb.research.migrations.0001_initial (module) crate_anon.crateweb.research.migrations.0002_auto_20170203_1348 (module) crate_anon.crateweb.research.migrations.0003_patientexplorer_patientexploreraudit (module) crate_anon.crateweb.research.migrations.0004_auto_20170212_0137 (module) crate_anon.crateweb.research.migrations.0005_query_sql_hash (module) crate_anon.crateweb.research.migrations.0006_patientexplorer_pmq_hash (module) crate_anon.crateweb.research.migrations.0007_sitewidequery (module) crate_anon.crateweb.research.migrations.0008_query_display (module) crate_anon.crateweb.research.migrations.0009_query_no_null (module) crate_anon.crateweb.research.migrations.0010_query_last_run (module) crate_anon.crateweb.research.migrations.0011_auto_20190521_2109 (module) crate_anon.crateweb.research.migrations.0012_archiveattachmentaudit_archivetemplateaudit (module) crate_anon.crateweb.research.migrations.__init__ (module) crate_anon.crateweb.research.models (module) crate_anon.crateweb.research.research_db_info (module) crate_anon.crateweb.research.sql_writer (module) crate_anon.crateweb.research.tests (module) crate_anon.crateweb.research.views (module) crate_anon.crateweb.specimen_secret_local_settings.__init__ (module) crate_anon.crateweb.specimen_secret_local_settings.crateweb_local_settings (module) crate_anon.crateweb.userprofile.__init__ (module) crate_anon.crateweb.userprofile.forms (module) crate_anon.crateweb.userprofile.migrations.0001_initial (module) crate_anon.crateweb.userprofile.migrations.0002_userprofile_sql_scratchpad (module) crate_anon.crateweb.userprofile.migrations.0003_auto_20160628_1301 (module) crate_anon.crateweb.userprofile.migrations.0004_userprofile_patients_per_page (module) crate_anon.crateweb.userprofile.migrations.0005_userprofile_patient_multiquery_scratchpad (module) crate_anon.crateweb.userprofile.migrations.0006_auto_20170212_0137 (module) crate_anon.crateweb.userprofile.migrations.0007_auto_20170507_1218 (module) crate_anon.crateweb.userprofile.migrations.__init__ (module) crate_anon.crateweb.userprofile.models (module) crate_anon.crateweb.userprofile.views (module) crate_anon.linkage.__init__ (module) crate_anon.linkage.bulk_hash (module) crate_anon.linkage.fuzzy_id_match (module) crate_anon.nlp_manager.__init__ (module) crate_anon.nlp_manager.all_processors (module) crate_anon.nlp_manager.base_nlp_parser (module) crate_anon.nlp_manager.build_gate_java_interface (module) crate_anon.nlp_manager.build_medex_itself (module) crate_anon.nlp_manager.build_medex_java_interface (module) crate_anon.nlp_manager.cloud_config (module) crate_anon.nlp_manager.cloud_parser (module) crate_anon.nlp_manager.cloud_request (module) crate_anon.nlp_manager.cloud_run_info (module) crate_anon.nlp_manager.constants (module) crate_anon.nlp_manager.input_field_config (module) crate_anon.nlp_manager.launch_multiprocess_nlp (module) crate_anon.nlp_manager.models (module) crate_anon.nlp_manager.nlp_definition (module) crate_anon.nlp_manager.nlp_manager (module) crate_anon.nlp_manager.number (module) crate_anon.nlp_manager.output_user_config (module) crate_anon.nlp_manager.parse_biochemistry (module) crate_anon.nlp_manager.parse_clinical (module) crate_anon.nlp_manager.parse_cognitive (module) crate_anon.nlp_manager.parse_gate (module) crate_anon.nlp_manager.parse_haematology (module) crate_anon.nlp_manager.parse_medex (module) crate_anon.nlp_manager.regex_func (module) crate_anon.nlp_manager.regex_numbers (module) crate_anon.nlp_manager.regex_parser (module) crate_anon.nlp_manager.regex_test (module) crate_anon.nlp_manager.regex_units (module) crate_anon.nlp_manager.test_all_regex (module) crate_anon.nlp_webserver.__init__ (module) crate_anon.nlp_webserver.constants (module) crate_anon.nlp_webserver.initialize_db (module) crate_anon.nlp_webserver.models (module) crate_anon.nlp_webserver.print_demos (module) crate_anon.nlp_webserver.security (module) crate_anon.nlp_webserver.server_processor (module) crate_anon.nlp_webserver.settings (module) crate_anon.nlp_webserver.wsgi_app (module) crate_anon.nlp_webserver.wsgi_launchers (module) crate_anon.preprocess.__init__ (module) crate_anon.preprocess.ddhint (module) crate_anon.preprocess.postcodes (module) crate_anon.preprocess.preprocess_pcmis (module) crate_anon.preprocess.preprocess_rio (module) crate_anon.preprocess.rio_constants (module) crate_anon.preprocess.rio_ddgen (module) crate_anon.preprocess.rio_pk (module) crate_anon.preprocess.rio_view_func (module) crate_anon.preprocess.rio_views (module) crate_anon.tools.__init__ (module) crate_anon.tools.celery_status (module) crate_anon.tools.email_rdbm (module) crate_anon.tools.launch_celery (module) crate_anon.tools.launch_cherrypy_server (module) crate_anon.tools.launch_docs (module) crate_anon.tools.launch_flower (module) crate_anon.tools.launch_nlp_webserver_gunicorn (module) crate_anon.tools.print_crateweb_demo_config (module) crate_anon.tools.to_base64 (module) crate_anon.tools.winservice (module) CratePdfPlan (class in crate_anon.crateweb.extra.pdf) CratewebService (class in crate_anon.tools.winservice) create() (crate_anon.crateweb.consent.models.ClinicianResponse class method) (crate_anon.crateweb.consent.models.ContactRequest class method) (crate_anon.crateweb.consent.models.EmailAttachment class method) (crate_anon.crateweb.consent.models.Letter class method) (crate_anon.crateweb.consent.models.PatientResponse class method) create_clinician_email() (crate_anon.crateweb.consent.models.Email class method) create_clinician_initiated_cr_email() (crate_anon.crateweb.consent.models.Email class method) create_consent_confirmation_to_patient() (crate_anon.crateweb.consent.models.Letter class method) create_indexes() (crate_anon.preprocess.ddhint.DDHint method) (in module crate_anon.anonymise.anonymise) create_pcmis_views() (in module crate_anon.preprocess.preprocess_pcmis) create_rdbm_email() (crate_anon.crateweb.consent.models.Email class method) create_rdbm_text_email() (crate_anon.crateweb.consent.models.Email class method) create_request_to_patient() (crate_anon.crateweb.consent.models.Letter class method) create_researcher_approval() (crate_anon.crateweb.consent.models.Letter class method) create_researcher_approval_email() (crate_anon.crateweb.consent.models.Email class method) create_researcher_withdrawal() (crate_anon.crateweb.consent.models.Letter class method) create_researcher_withdrawal_email() (crate_anon.crateweb.consent.models.Email class method) create_rio_views() (in module crate_anon.preprocess.preprocess_rio) create_view() (crate_anon.common.sql.ViewMaker method) (in module crate_anon.common.sql) Creatinine (class in crate_anon.nlp_manager.parse_biochemistry) CreatinineValidator (class in crate_anon.nlp_manager.parse_biochemistry) Credentials (class in crate_anon.nlp_webserver.security) Crp (class in crate_anon.nlp_manager.parse_biochemistry) CrpValidator (class in crate_anon.nlp_manager.parse_biochemistry) current() (crate_anon.crateweb.consent.models.ClinicianInfoHolder method) CustomFileSystemStorage (class in crate_anon.crateweb.consent.storage)

D

d_description (crate_anon.linkage.fuzzy_id_match.Comparison attribute) (crate_anon.linkage.fuzzy_id_match.DirectComparison attribute) (crate_anon.linkage.fuzzy_id_match.FullOrPartialComparison attribute) (crate_anon.linkage.fuzzy_id_match.SimpleComparison attribute) data_filename() (crate_anon.nlp_manager.cloud_config.CloudConfig method) data_finder_excel (crate_anon.crateweb.research.models.PatientExplorer attribute) database_schema_part() (crate_anon.common.sql.TableId method) DatabaseConfigKeys (class in crate_anon.nlp_manager.constants) DatabaseHolder (class in crate_anon.anonymise.dbholder) DatabasePickerForm (class in crate_anon.crateweb.research.forms) DatabaseSafeConfig (class in crate_anon.anonymise.config) DataDictionary (class in crate_anon.anonymise.dd) DataDictionaryRow (class in crate_anon.anonymise.ddr) Datazone (class in crate_anon.preprocess.postcodes) datetime_iso_for_filename() (in module crate_anon.crateweb.research.views) days_since_discharge() (crate_anon.crateweb.consent.models.PatientLookupBase method) days_to_years() (in module crate_anon.crateweb.consent.utils) db (crate_anon.common.sql.ColumnId attribute) (crate_anon.common.sql.SchemaId attribute) (crate_anon.common.sql.TableId attribute) DbInfo (class in crate_anon.nlp_manager.nlp_manager) dbs_with_secret_map (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo attribute) DCELLS (class in crate_anon.preprocess.postcodes) DDHint (class in crate_anon.preprocess.ddhint) deactivate() (crate_anon.crateweb.research.models.Highlight method) debug_cache_hits() (crate_anon.anonymise.dd.DataDictionary method) debug_delete_something() (crate_anon.linkage.fuzzy_id_match.Person method) debug_mutate_something() (crate_anon.linkage.fuzzy_id_match.Person method) debug_query() (in module crate_anon.crateweb.research.models) decide() (crate_anon.crateweb.consent.models.ContactRequest method) DECISION (class in crate_anon.anonymise.constants) Decision (class in crate_anon.crateweb.consent.models) decision (crate_anon.anonymise.ddr.DataDictionaryRow attribute) decision_form_to_pt_re_study() (in module crate_anon.crateweb.consent.views) decision_valid() (crate_anon.crateweb.consent.models.Decision method) decrypt_password() (in module crate_anon.nlp_webserver.security) defines_primary_pids (crate_anon.anonymise.ddr.DataDictionaryRow attribute) delete_all_from_queue() (crate_anon.nlp_manager.cloud_request.CloudRequestQueueManagement method) delete_all_progress_records() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) delete_dest_record() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) delete_dest_records() (crate_anon.nlp_manager.cloud_run_info.CloudRunInfo method) delete_dest_rows_with_no_src_row() (in module crate_anon.anonymise.anonymise) delete_from_queue() (crate_anon.nlp_manager.cloud_request.CloudRequestQueueManagement method) delete_if_permitted() (crate_anon.crateweb.research.models.PatientExplorer method) (crate_anon.crateweb.research.models.Query method) delete_progress_records_where_srcpk_not() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) delete_where_no_source() (in module crate_anon.nlp_manager.nlp_manager) delete_where_srcpk_not() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) delimit_sql_identifier() (in module crate_anon.crateweb.research.archive_func) demo_config() (in module crate_anon.nlp_webserver.print_demos) demo_nlp_config() (in module crate_anon.nlp_manager.nlp_definition) demo_processors() (in module crate_anon.nlp_webserver.print_demos) describe_sqla_col() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser static method)

dest_tables_columns() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) (crate_anon.nlp_manager.cloud_parser.Cloud method) (crate_anon.nlp_manager.parse_clinical.Bp method) (crate_anon.nlp_manager.parse_gate.Gate method) (crate_anon.nlp_manager.parse_medex.Medex method) (crate_anon.nlp_manager.regex_parser.NumeratorOutOfDenominatorParser method) (crate_anon.nlp_manager.regex_parser.NumericalResultParser method) (crate_anon.nlp_manager.regex_parser.ValidatorBase method) dest_tables_indexes() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) (crate_anon.nlp_manager.cloud_parser.Cloud method) (crate_anon.nlp_manager.parse_gate.Gate method) (crate_anon.nlp_manager.parse_medex.Medex method) detailed_test() (crate_anon.nlp_manager.regex_parser.NumericalResultParser method) DevAdminSite (class in crate_anon.crateweb.core.admin) dictfetchall() (crate_anon.crateweb.research.models.Query method) DirectComparison (class in crate_anon.linkage.fuzzy_id_match) District (class in crate_anon.preprocess.postcodes) do_cprofile() (in module crate_anon.common.profiling) DocProcRequest (class in crate_anon.nlp_webserver.models) Document (class in crate_anon.nlp_webserver.models) does_table_fail_minimum_fields() (crate_anon.anonymise.config.DatabaseSafeConfig method) does_text_contain_word_chars() (in module crate_anon.common.stringfunc) download_privatestorage() (in module crate_anon.crateweb.consent.views) draft_approval_email() (in module crate_anon.crateweb.consent.views) draft_approval_letter() (in module crate_anon.crateweb.consent.views) draft_clinician_email() (in module crate_anon.crateweb.consent.views) draft_confirm_traffic_light_letter() (in module crate_anon.crateweb.consent.views) draft_first_traffic_light_letter() (in module crate_anon.crateweb.consent.views) draft_letter_clinician_to_pt_re_study() (in module crate_anon.crateweb.consent.views) draft_traffic_light_decision_form() (in module crate_anon.crateweb.consent.views) draft_withdrawal_email() (in module crate_anon.crateweb.consent.views) draft_withdrawal_letter() (in module crate_anon.crateweb.consent.views) drop_columns() (in module crate_anon.common.sql) drop_for_clindocs_table() (in module crate_anon.preprocess.preprocess_rio) drop_for_master_patient_table() (in module crate_anon.preprocess.preprocess_rio) drop_for_nonpatient_table() (in module crate_anon.preprocess.preprocess_rio) drop_for_patient_table() (in module crate_anon.preprocess.preprocess_rio) drop_for_progress_notes() (in module crate_anon.preprocess.preprocess_rio) drop_indexes() (crate_anon.preprocess.ddhint.DDHint method) (in module crate_anon.common.sql) drop_pcmis_views() (in module crate_anon.preprocess.preprocess_pcmis) drop_remake() (in module crate_anon.anonymise.anonymise) (in module crate_anon.nlp_manager.nlp_manager) drop_rio_views() (in module crate_anon.preprocess.preprocess_rio) drop_view() (crate_anon.common.sql.ViewMaker method) (in module crate_anon.common.sql) drugmatch() (in module crate_anon.crateweb.research.views) dumb_make_identifier() (in module crate_anon.common.sql) DummyObjectCollection (class in crate_anon.crateweb.consent.models) DummyPatientSourceInfo (class in crate_anon.crateweb.consent.models) DummyPatientSourceInfo.DoesNotExist DummyPatientSourceInfo.MultipleObjectsReturned DummyPatientSourceInfoDevAdmin (class in crate_anon.crateweb.core.admin)

E

edit_display() (in module crate_anon.crateweb.research.views) edit_profile() (in module crate_anon.crateweb.userprofile.views) EditOnceOnlyModelAdmin (class in crate_anon.crateweb.extra.admin) EditOnlyModelAdmin (class in crate_anon.crateweb.extra.admin) EER (class in crate_anon.preprocess.postcodes) eligible_for_query_builder (crate_anon.crateweb.research.research_db_info.SingleResearchDatabase attribute) Email (class in crate_anon.crateweb.consent.models) Email.DoesNotExist Email.MultipleObjectsReturned email_css() (in module crate_anon.crateweb.consent.utils) email_rdbm() (in module crate_anon.crateweb.manage) EmailAttachment (class in crate_anon.crateweb.consent.models) EmailAttachment.DoesNotExist EmailAttachment.MultipleObjectsReturned EmailDevAdmin (class in crate_anon.crateweb.core.admin) EmailMgrAdmin (class in crate_anon.crateweb.core.admin) EmailResAdmin (class in crate_anon.crateweb.core.admin) EmailSentListFilter (class in crate_anon.crateweb.core.admin) EmailTransmission (class in crate_anon.crateweb.consent.models) EmailTransmission.DoesNotExist EmailTransmission.MultipleObjectsReturned embedded_attachment_html() (in module crate_anon.crateweb.research.archive_func) encrypt_master_pid() (crate_anon.anonymise.config.Config method) encrypt_password() (in module crate_anon.nlp_webserver.security) encrypt_primary_pid() (crate_anon.anonymise.config.Config method) ensure_columns_present() (in module crate_anon.common.sql)

ensure_rid() (crate_anon.anonymise.models.PatientInfo method) ensure_trid() (crate_anon.anonymise.models.PatientInfo method) EnterpriseRegion (class in crate_anon.preprocess.postcodes) EnumColours (class in crate_anon.anonymise.make_demo_database) Eosinophils (class in crate_anon.nlp_manager.parse_haematology) EosinophilsValidator (class in crate_anon.nlp_manager.parse_haematology) EponymInfo (class in crate_anon.anonymise.eponyms) escape_literal_for_regex_giving_charlist() (in module crate_anon.anonymise.anonregex) escape_literal_string_for_regex() (in module crate_anon.anonymise.anonregex) (in module crate_anon.crateweb.research.html_functions) escape_percent_for_python_dbapi() (in module crate_anon.common.sql) escape_percent_in_literal() (in module crate_anon.common.sql) escape_quote_in_literal() (in module crate_anon.common.sql) escape_sql_string_literal() (in module crate_anon.common.sql) escape_sql_string_or_int_literal() (in module crate_anon.common.sql) Esr (class in crate_anon.nlp_manager.parse_haematology) EsrValidator (class in crate_anon.nlp_manager.parse_haematology) estimate_count_patients() (in module crate_anon.anonymise.anonymise) examples_for_paper() (in module crate_anon.anonymise.anonregex) exclusion_report() (in module crate_anon.crateweb.consent.views) exclusion_values (crate_anon.anonymise.ddr.DataDictionaryRow attribute) execute() (in module crate_anon.common.sql) exists() (crate_anon.crateweb.consent.models.EmailAttachment method) ExtendedBase (class in crate_anon.preprocess.postcodes) ExtendedConfigParser (class in crate_anon.common.extendedconfigparser) ExtendedUserMgrAdmin (class in crate_anon.crateweb.core.admin) extract_text_extension_permissible() (crate_anon.anonymise.config.Config method)

F

f_score() (in module crate_anon.nlp_manager.regex_test) factor_micromolar_from_mg_per_dl() (in module crate_anon.nlp_manager.regex_units) factor_millimolar_from_mg_per_dl() (in module crate_anon.nlp_manager.regex_units) fetch_english_words() (in module crate_anon.anonymise.fetch_wordlists) fetch_eponyms() (in module crate_anon.anonymise.fetch_wordlists) fetch_optouts() (in module crate_anon.crateweb.consent.management.commands.fetch_optouts) fetch_us_forenames() (in module crate_anon.anonymise.fetch_wordlists) fetch_us_surnames() (in module crate_anon.anonymise.fetch_wordlists) FieldInfo (class in crate_anon.anonymise.test_anonymisation) fieldname_is_pid() (in module crate_anon.anonymise.anonymise) FieldPickerInfo (class in crate_anon.crateweb.research.forms) FilenameDoc (class in crate_anon.anonymise.make_demo_database) filter_files() (in module crate_anon.anonymise.fetch_wordlists) filter_studies_for_researcher() (crate_anon.crateweb.consent.models.Study static method) finalize_a() (crate_anon.crateweb.consent.models.ClinicianResponse method) finalize_b() (crate_anon.crateweb.consent.models.ClinicianResponse method) finalize_clinician_response_in_background() (in module crate_anon.crateweb.consent.views) first_dbinfo (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo attribute) first_dbinfo_with_secret_map (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo attribute)

float_or_na_for_us_surnames() (in module crate_anon.anonymise.fetch_wordlists) float_validator() (in module crate_anon.crateweb.research.forms) forename_freq() (crate_anon.linkage.fuzzy_id_match.MatchConfig method) forename_metaphone_freq() (crate_anon.linkage.fuzzy_id_match.MatchConfig method) forename_surname() (in module crate_anon.crateweb.extra.salutation) form (crate_anon.crateweb.core.admin.ConsentModeMgrAdmin attribute) (crate_anon.crateweb.core.admin.PatientResponseMgrAdmin attribute) (crate_anon.crateweb.core.admin.TeamRepMgrAdmin attribute) format_sql_for_print() (in module crate_anon.common.sql) freq_p (crate_anon.anonymise.fetch_wordlists.NameInfo attribute) frequency_and_timex() (crate_anon.nlp_manager.parse_medex.Medex static method) frequency_rules_line() (in module crate_anon.nlp_manager.build_medex_itself) from_file (crate_anon.anonymise.ddr.DataDictionaryRow attribute) from_hashed_csv() (crate_anon.linkage.fuzzy_id_match.Person class method) from_plaintext_csv() (crate_anon.linkage.fuzzy_id_match.Person class method) from_schema_tag() (crate_anon.common.sql.SchemaId class method) from_table() (crate_anon.crateweb.research.sql_writer.SelectElement method) from_table_str() (crate_anon.crateweb.research.sql_writer.SelectElement method) FullOrPartialComparison (class in crate_anon.linkage.fuzzy_id_match) fully_qualified_name() (crate_anon.nlp_manager.base_nlp_parser.TableMaker class method)

G

Gate (class in crate_anon.nlp_manager.parse_gate) GateApiKeys (class in crate_anon.nlp_manager.constants) GateFieldNames (class in crate_anon.nlp_manager.constants) GateResultKeys (class in crate_anon.nlp_manager.constants) gen_all_values_for_patient() (in module crate_anon.anonymise.patient) gen_data_finder_queries() (crate_anon.crateweb.research.models.PatientMultiQuery method) gen_descendants() (crate_anon.crateweb.core.utils.JavascriptTreeNode method) gen_display_rows() (crate_anon.crateweb.research.models.Query method) gen_excel_row_elements() (in module crate_anon.crateweb.research.models) gen_index_row_sets_by_table() (in module crate_anon.anonymise.anonymise) gen_integers_from_file() (in module crate_anon.common.file_io) gen_ints() (in module crate_anon.common.extendedconfigparser) gen_lines() (in module crate_anon.common.extendedconfigparser) gen_monster_queries() (crate_anon.crateweb.research.models.PatientMultiQuery method) gen_name_from_name_info() (in module crate_anon.anonymise.fetch_wordlists) gen_name_info_via_min_length() (in module crate_anon.anonymise.fetch_wordlists) gen_nonpatient_tables_with_int_pk() (in module crate_anon.anonymise.anonymise) gen_nonpatient_tables_without_int_pk() (in module crate_anon.anonymise.anonymise) gen_opt_out_pids_from_database() (in module crate_anon.anonymise.anonymise) gen_opt_out_pids_from_file() (in module crate_anon.anonymise.anonymise) gen_opt_out_pids_mpids() (in module crate_anon.crateweb.consent.lookup) gen_opt_out_pids_mpids_rio_cpft_datamart() (in module crate_anon.crateweb.consent.lookup_rio) gen_opt_out_pids_mpids_rio_generic() (in module crate_anon.crateweb.consent.lookup_rio) gen_opt_out_pids_mpids_rio_raw() (in module crate_anon.crateweb.consent.lookup_rio) gen_optout_rids() (in module crate_anon.anonymise.anonymise) gen_patient_ids() (in module crate_anon.anonymise.anonymise) gen_pks() (in module crate_anon.anonymise.anonymise) gen_rows() (crate_anon.crateweb.research.models.Query method) (in module crate_anon.anonymise.anonymise) gen_src_pks() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) gen_sufficiently_frequent_names() (in module crate_anon.anonymise.fetch_wordlists) gen_text() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) gen_us_forename_info() (in module crate_anon.anonymise.fetch_wordlists) gen_us_surname_1990_info() (in module crate_anon.anonymise.fetch_wordlists) gen_us_surname_2010_info() (in module crate_anon.anonymise.fetch_wordlists) gen_valid_words_from_words() (in module crate_anon.anonymise.fetch_wordlists) gen_words() (in module crate_anon.common.extendedconfigparser) gen_words_from_file() (in module crate_anon.common.file_io) generate_encryption_key() (in module crate_anon.nlp_webserver.security) generate_random_nhs() (in module crate_anon.crateweb.consent.views) generic_error() (in module crate_anon.crateweb.research.views) GenericLookupClassMeta (class in crate_anon.preprocess.postcodes) GenericLookupClassType (class in crate_anon.preprocess.postcodes) get_abs_url() (crate_anon.crateweb.consent.models.ClinicianResponse method) get_abs_url_maybe() (crate_anon.crateweb.consent.models.ClinicianResponse method) get_abs_url_no() (crate_anon.crateweb.consent.models.ClinicianResponse method) get_abs_url_path() (crate_anon.crateweb.consent.models.ClinicianResponse method) get_abs_url_yes() (crate_anon.crateweb.consent.models.ClinicianResponse method) get_active_highlights() (crate_anon.crateweb.research.models.Highlight static method) get_active_pe_id_or_none() (crate_anon.crateweb.research.models.PatientExplorer static method) get_active_pe_or_none() (crate_anon.crateweb.research.models.PatientExplorer static method) get_active_query_id_or_none() (crate_anon.crateweb.research.models.Query static method) get_active_query_or_none() (crate_anon.crateweb.research.models.Query static method) get_address_components() (crate_anon.crateweb.userprofile.models.UserProfile method) get_all_pes() (in module crate_anon.crateweb.research.views) get_all_queries() (in module crate_anon.crateweb.research.views) get_all_sitewide_queries() (in module crate_anon.crateweb.research.views) get_all_subclasses() (in module crate_anon.nlp_manager.all_processors) get_alter_methods() (crate_anon.anonymise.ddr.DataDictionaryRow method) get_anon_fragments_from_string() (in module crate_anon.anonymise.anonregex) get_approval_email_html() (crate_anon.crateweb.consent.models.ContactRequest method) get_approval_letter_html() (crate_anon.crateweb.consent.models.ContactRequest method) get_archive_attachment_filepath() (in module crate_anon.crateweb.research.archive_backend) get_archive_static_filepath() (in module crate_anon.crateweb.research.archive_backend) get_archive_template_filepath() (in module crate_anon.crateweb.research.archive_backend) get_auth_credentials() (in module crate_anon.nlp_webserver.security) get_bool() (crate_anon.common.extendedconfigparser.ExtendedConfigParser method) get_cfgsection() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) get_changelist() (crate_anon.crateweb.extra.admin.AddOnlyModelAdmin method) (crate_anon.crateweb.extra.admin.ReadOnlyModelAdmin method) get_clinician_email_html() (crate_anon.crateweb.consent.models.ContactRequest method) get_clinician_initiated_email_html() (crate_anon.crateweb.consent.models.ContactRequest method) get_clinician_involvement() (crate_anon.crateweb.consent.models.ContactRequest static method) get_clinician_pack_pdf() (crate_anon.crateweb.consent.models.ContactRequest method) get_cloud_config() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_cloud_config_or_raise() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_code_regex_elements() (in module crate_anon.anonymise.anonregex) get_coltype_parts() (crate_anon.nlp_manager.cloud_parser.Cloud static method) get_column_names() (crate_anon.crateweb.research.models.Query method) (in module crate_anon.common.sql) get_columns() (crate_anon.nlp_manager.output_user_config.OutputUserConfig method) get_common_querydict() (crate_anon.crateweb.consent.models.ClinicianResponse method) get_compiled_regex_results() (in module crate_anon.nlp_manager.regex_test) get_confirm_traffic_to_patient_letter_html() (crate_anon.crateweb.consent.models.ConsentMode method) get_consent_mode() (in module crate_anon.crateweb.consent.views) get_contact_request() (in module crate_anon.crateweb.consent.views) get_copy_columns() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) get_copy_indexes() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) get_core_columns_for_dest() (crate_anon.nlp_manager.input_field_config.InputFieldConfig static method) get_core_indexes_for_dest() (crate_anon.nlp_manager.input_field_config.InputFieldConfig static method) get_count() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) get_database() (crate_anon.common.extendedconfigparser.ExtendedConfigParser method) (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_date_regex_elements() (in module crate_anon.anonymise.anonregex) get_dbinfo_by_name() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_dbinfo_by_schema_id() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_dbname() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) get_decision_form_to_pt_re_study() (crate_anon.crateweb.consent.models.ContactRequest method) get_default_database_name() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_default_date_column() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_default_date_field() (crate_anon.crateweb.research.research_db_info.SingleResearchDatabase method) get_default_schema_name() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_dest_dialect() (crate_anon.anonymise.config.Config method) get_dest_signature() (crate_anon.anonymise.ddr.DataDictionaryRow method) get_dest_sqla_coltype() (crate_anon.anonymise.ddr.DataDictionaryRow method) get_dest_sqla_column() (crate_anon.anonymise.ddr.DataDictionaryRow method) get_dest_sqla_table (crate_anon.anonymise.dd.DataDictionary attribute) get_dest_table_for_src_db_table (crate_anon.anonymise.dd.DataDictionary attribute) get_dest_tables (crate_anon.anonymise.dd.DataDictionary attribute) get_dest_tables_for_src_db_table (crate_anon.anonymise.dd.DataDictionary attribute) get_dest_tables_with_patient_info (crate_anon.anonymise.dd.DataDictionary attribute) get_destdb() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) get_destdb_engine_outside_transaction() (crate_anon.anonymise.config.Config method) get_destfields() (crate_anon.nlp_manager.output_user_config.OutputUserConfig method) get_digit_string_from_vaguely_numeric_string() (in module crate_anon.common.stringfunc) get_display_column_names() (crate_anon.crateweb.research.models.Query method) get_display_indexes() (crate_anon.crateweb.research.models.Query method) get_display_list() (crate_anon.crateweb.research.models.Query method) get_display_rows() (crate_anon.crateweb.research.models.Query method) get_docids() (in module crate_anon.anonymise.test_anonymisation) get_domain_from_email() (in module crate_anon.crateweb.consent.utils) get_dummy_teams() (in module crate_anon.crateweb.consent.teamlookup_dummy) get_elements_code() (crate_anon.anonymise.scrub.PersonalizedScrubber method) get_elements_date() (crate_anon.anonymise.scrub.PersonalizedScrubber method) get_elements_numeric() (crate_anon.anonymise.scrub.PersonalizedScrubber method) get_elements_phrase() (crate_anon.anonymise.scrub.PersonalizedScrubber method) get_elements_words() (crate_anon.anonymise.scrub.PersonalizedScrubber method) get_engine() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) get_env_dict() (crate_anon.common.extendedconfigparser.ExtendedConfigParser method) (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_excel() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_executed_cursor() (crate_anon.crateweb.research.models.PatientExplorer static method) (crate_anon.crateweb.research.models.Query method) get_executed_researchdb_cursor() (in module crate_anon.crateweb.research.models) get_executed_researchdb_cursor_qmark_placeholders() (in module crate_anon.crateweb.research.models) get_extra_hasher() (crate_anon.anonymise.config.Config method) (in module crate_anon.anonymise.config) get_extracting_text_altermethods() (crate_anon.anonymise.ddr.DataDictionaryRow method) get_fieldnames_for_src_table (crate_anon.anonymise.dd.DataDictionary attribute) get_fields() (crate_anon.crateweb.extra.admin.AddOnlyModelAdmin method) get_first_from_table() (in module crate_anon.common.sql) get_first_traffic_light_letter_html() (crate_anon.crateweb.consent.models.PatientLookup method) get_forename_surname() (crate_anon.crateweb.userprofile.models.UserProfile method) get_formatted_sql() (crate_anon.crateweb.research.models.QueryBase method) get_friendly_date() (in module crate_anon.crateweb.core.utils) get_hash() (crate_anon.anonymise.scrub.NonspecificScrubber method) (crate_anon.anonymise.scrub.PersonalizedScrubber method) (crate_anon.anonymise.scrub.ScrubberBase method) (crate_anon.anonymise.scrub.WordList method) get_highlight_descriptions() (in module crate_anon.crateweb.research.views) get_id_numbers_as_str() (crate_anon.crateweb.consent.models.PatientLookupBase method) get_identical_pes() (in module crate_anon.crateweb.research.views) get_identical_queries() (in module crate_anon.crateweb.research.views) get_ifconfigs() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_index_names() (in module crate_anon.common.sql) get_index_request_dict() (crate_anon.common.sql.ViewMaker method) get_indexes() (crate_anon.nlp_manager.output_user_config.OutputUserConfig method) get_initial_surname_tuple_from_string() (in module crate_anon.crateweb.extra.salutation) get_int_default_if_failure() (crate_anon.common.extendedconfigparser.ExtendedConfigParser method) get_int_list() (crate_anon.common.extendedconfigparser.ExtendedConfigParser method) get_int_pk_ddr (crate_anon.anonymise.dd.DataDictionary attribute) get_int_pk_name (crate_anon.anonymise.dd.DataDictionary attribute) get_involves_lack_of_capacity() (crate_anon.crateweb.consent.models.Study method) get_join_info() (in module crate_anon.crateweb.research.sql_writer) get_latest_consent_mode_from_rio_cpft_datamart() (in module crate_anon.crateweb.consent.lookup_rio) get_latest_consent_mode_from_rio_generic() (in module crate_anon.crateweb.consent.lookup_rio) get_latest_consent_mode_from_rio_raw() (in module crate_anon.crateweb.consent.lookup_rio) get_latest_patient_lookup() (crate_anon.crateweb.consent.models.ConsentMode method) get_lead_researcher_name_address() (crate_anon.crateweb.consent.models.Study method) get_lead_researcher_salutation() (crate_anon.crateweb.consent.models.Study method) get_letter_clinician_to_pt_re_study() (crate_anon.crateweb.consent.models.ContactRequest method) get_linked_mrid_column() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_local_processors() (crate_anon.nlp_manager.cloud_run_info.CloudRunInfo method) get_logtag() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_lookup_tables() (crate_anon.common.sql.ViewMaker method) get_mandatory_scrubber_sigs (crate_anon.anonymise.dd.DataDictionary attribute) get_metadata() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) get_metaphone() (in module crate_anon.linkage.fuzzy_id_match) get_mgr_admin_url() (crate_anon.crateweb.consent.models.ContactRequest method) get_mpid() (crate_anon.anonymise.patient.Patient method) (in module crate_anon.crateweb.research.models) get_mpid_name (crate_anon.anonymise.dd.DataDictionary attribute) get_mrid() (crate_anon.anonymise.patient.Patient method) get_mrid_column_from_schema() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_mrid_column_from_table() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_name() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_nlp_parser_class() (in module crate_anon.nlp_manager.all_processors)

get_nlp_values() (crate_anon.nlp_manager.cloud_request.CloudRequestProcess method) get_nlp_values_gate() (crate_anon.nlp_manager.cloud_request.CloudRequestProcess static method) get_nlp_values_internal() (crate_anon.nlp_manager.cloud_request.CloudRequestProcess static method) get_nlpdef_name() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) get_noncloud_processors() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_now() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_number_of_length_n_regex_elements() (in module crate_anon.anonymise.anonregex) get_offender_description() (crate_anon.anonymise.ddr.DataDictionaryRow method) get_optout_defining_fields (crate_anon.anonymise.dd.DataDictionary attribute) get_or_create() (crate_anon.crateweb.consent.models.ConsentMode class method) get_or_none() (crate_anon.crateweb.consent.models.ConsentMode class method) get_original_sql() (crate_anon.crateweb.research.models.QueryBase method) get_parser() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_parser_name() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) get_patient_id_query() (crate_anon.crateweb.research.models.PatientExplorer method) get_patient_lookup() (in module crate_anon.crateweb.consent.views) get_patient_mrids() (crate_anon.crateweb.research.models.PatientExplorer method) get_patient_regex_string() (crate_anon.anonymise.scrub.PersonalizedScrubber method) get_patient_src_tables_with_active_dest (crate_anon.anonymise.dd.DataDictionary attribute) get_patientnum_anontext() (in module crate_anon.anonymise.test_anonymisation) get_patientnum_rawtext() (in module crate_anon.anonymise.test_anonymisation) get_patients_per_page() (in module crate_anon.crateweb.userprofile.models) get_pcmis_dd_settings() (in module crate_anon.preprocess.preprocess_pcmis) get_pcmis_views() (in module crate_anon.preprocess.preprocess_pcmis) get_pdf_from_html_with_django_settings() (in module crate_anon.crateweb.extra.pdf) get_per_page() (in module crate_anon.crateweb.userprofile.models) get_permission_date() (crate_anon.crateweb.consent.models.ContactRequest method) get_phrase_regex_elements() (in module crate_anon.anonymise.anonregex) get_pid() (crate_anon.anonymise.patient.Patient method) (in module crate_anon.crateweb.research.models) get_pid_lookup() (in module crate_anon.crateweb.research.models) get_pid_name (crate_anon.anonymise.dd.DataDictionary attribute) get_pid_subset_from_field() (in module crate_anon.anonymise.anonymise) get_pids_from_field_limits() (in module crate_anon.anonymise.anonymise) get_pids_from_file() (in module crate_anon.anonymise.anonymise) get_pids_from_limits() (in module crate_anon.anonymise.anonymise) get_pids_from_list() (in module crate_anon.anonymise.anonymise) get_pids_query_field_limits() (in module crate_anon.anonymise.anonymise) get_pk_ddr (crate_anon.anonymise.dd.DataDictionary attribute) get_plain_eponyms() (in module crate_anon.anonymise.eponyms) get_postcode_sector() (in module crate_anon.linkage.fuzzy_id_match) get_processor() (crate_anon.nlp_webserver.server_processor.ServerProcessor class method) get_processor_from_id() (crate_anon.nlp_webserver.server_processor.ServerProcessor class method) get_processor_nlprp() (crate_anon.nlp_webserver.server_processor.ServerProcessor class method) get_processors() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_progdb() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_progdb_engine() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_progdb_metadata() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_progdb_session() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_progress_record() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) get_pt_age_years() (crate_anon.crateweb.consent.models.PatientLookupBase method) get_pyvalue_list() (crate_anon.common.extendedconfigparser.ExtendedConfigParser method) get_queryset() (crate_anon.crateweb.core.admin.ConsentModeMgrAdmin method) (crate_anon.crateweb.core.admin.ContactRequestResAdmin method) (crate_anon.crateweb.core.admin.EmailMgrAdmin method) (crate_anon.crateweb.core.admin.EmailResAdmin method) (crate_anon.crateweb.core.admin.LetterMgrAdmin method) (crate_anon.crateweb.core.admin.LetterResAdmin method) (crate_anon.crateweb.core.admin.PatientResponseMgrAdmin method) (crate_anon.crateweb.core.admin.StudyResAdmin method) get_queryset_possible_contact_studies() (crate_anon.crateweb.consent.models.Study static method) get_raw_info() (crate_anon.anonymise.scrub.PersonalizedScrubber method) get_readonly_fields() (crate_anon.crateweb.extra.admin.AddOnlyModelAdmin method) get_regex_dict_match() (in module crate_anon.nlp_manager.regex_func) get_regex_from_elements() (in module crate_anon.anonymise.anonregex) get_regex_from_highlights() (in module crate_anon.crateweb.research.html_functions) get_regex_str_for_debugging() (crate_anon.nlp_manager.regex_parser.NumericalResultParser method) get_regex_string_from_elements() (in module crate_anon.anonymise.anonregex) get_remote_processors() (crate_anon.nlp_manager.cloud_request.CloudRequestListProcessors method) (crate_anon.nlp_manager.cloud_run_info.CloudRunInfo method) get_requested_processors() (crate_anon.nlp_manager.cloud_run_info.CloudRunInfo method) get_response_explanation() (crate_anon.crateweb.consent.models.ClinicianResponse method) get_rid() (crate_anon.anonymise.patient.Patient method) get_rid_column() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_rio_dd_settings() (in module crate_anon.preprocess.rio_ddgen) get_rio_patient_id_col() (in module crate_anon.preprocess.preprocess_rio) get_rio_teams_rcep_crate() (in module crate_anon.crateweb.consent.teamlookup_rio) get_rio_views() (in module crate_anon.preprocess.preprocess_rio) get_rowcount() (crate_anon.crateweb.research.models.Query method) get_rows() (crate_anon.crateweb.research.models.Query method) get_rows_for_dest_table (crate_anon.anonymise.dd.DataDictionary attribute) get_rows_for_src_table (crate_anon.anonymise.dd.DataDictionary attribute) get_safe_colour() (crate_anon.crateweb.research.models.Highlight method) get_salutation() (crate_anon.crateweb.userprofile.models.UserProfile method) get_schema_infodictlist() (crate_anon.crateweb.research.research_db_info.SingleResearchDatabase method) get_scrub_from_db_table_pairs (crate_anon.anonymise.dd.DataDictionary attribute) get_scrub_from_rows (crate_anon.anonymise.dd.DataDictionary attribute) get_scrub_method() (crate_anon.anonymise.scrub.PersonalizedScrubber static method) get_scrubber_hash() (crate_anon.anonymise.patient.Patient method) get_session() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) get_signature() (crate_anon.anonymise.ddr.DataDictionaryRow method) get_source_databases (crate_anon.anonymise.dd.DataDictionary attribute) get_source_db_names() (crate_anon.anonymise.config.Config method) get_source_session() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) get_spec_match_regex (in module crate_anon.common.stringfunc) get_sql() (crate_anon.common.sql.ViewMaker method) get_sql_args_for_django() (crate_anon.crateweb.research.models.Query method) get_src_db_tablepairs (crate_anon.anonymise.dd.DataDictionary attribute) get_src_db_tablepairs_w_int_pk (crate_anon.anonymise.dd.DataDictionary attribute) get_src_db_tablepairs_w_pt_info (crate_anon.anonymise.dd.DataDictionary attribute) get_src_dbs_tables_for_dest_table (crate_anon.anonymise.dd.DataDictionary attribute) get_src_dbs_tables_with_no_pt_info_int_pk (crate_anon.anonymise.dd.DataDictionary attribute) get_src_dbs_tables_with_no_pt_info_no_pk (crate_anon.anonymise.dd.DataDictionary attribute) get_src_dialect() (crate_anon.anonymise.config.Config method) get_src_sqla_coltype() (crate_anon.anonymise.ddr.DataDictionaryRow method) get_src_tables (crate_anon.anonymise.dd.DataDictionary attribute) get_src_tables_with_active_dest (crate_anon.anonymise.dd.DataDictionary attribute) get_src_tables_with_patient_info (crate_anon.anonymise.dd.DataDictionary attribute) get_srcdatetimefield() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) get_srcdb() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) get_srcfield() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) get_srcpkfield() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) get_srctable() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) get_str() (crate_anon.common.extendedconfigparser.ExtendedConfigParser method) get_str_list() (crate_anon.common.extendedconfigparser.ExtendedConfigParser method) get_string_regex_elements() (in module crate_anon.anonymise.anonregex) get_suppressed_tables() (crate_anon.preprocess.ddhint.DDHint method) get_table() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) get_table_names() (in module crate_anon.common.sql) get_tablename() (crate_anon.nlp_manager.output_user_config.OutputUserConfig method) get_tablenames() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) get_temporary_tablename() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_text() (crate_anon.anonymise.altermethod.AlterMethod method) get_text_start_end() (crate_anon.nlp_manager.parse_medex.Medex static method) get_title_forename_surname() (crate_anon.crateweb.userprofile.models.UserProfile method) get_tp_regex_string() (crate_anon.anonymise.scrub.PersonalizedScrubber method) get_traffic_light_decision_form() (crate_anon.crateweb.consent.models.PatientLookupBase method) get_transation_limiter() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) get_trid() (crate_anon.anonymise.models.TridRecord class method) (crate_anon.anonymise.patient.Patient method) get_trid_column() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_tsv() (crate_anon.anonymise.dd.DataDictionary method) (crate_anon.anonymise.ddr.DataDictionaryRow method) (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) get_uk_postcode_regex() (in module crate_anon.linkage.fuzzy_id_match) get_uk_postcode_regex_elements() (in module crate_anon.anonymise.anonregex) get_unprocessed() (crate_anon.crateweb.consent.models.ConsentMode static method) (crate_anon.crateweb.consent.models.ContactRequest static method) (crate_anon.crateweb.consent.models.PatientResponse static method) get_valid_pid_subset() (in module crate_anon.anonymise.anonymise) get_variablename_regexstrlist() (crate_anon.nlp_manager.parse_biochemistry.CreatinineValidator class method) (crate_anon.nlp_manager.parse_biochemistry.CrpValidator class method) (crate_anon.nlp_manager.parse_biochemistry.GlucoseValidator class method) (crate_anon.nlp_manager.parse_biochemistry.HDLCholesterolValidator class method) (crate_anon.nlp_manager.parse_biochemistry.HbA1cValidator class method) (crate_anon.nlp_manager.parse_biochemistry.LDLCholesterolValidator class method) (crate_anon.nlp_manager.parse_biochemistry.LithiumValidator class method) (crate_anon.nlp_manager.parse_biochemistry.PotassiumValidator class method) (crate_anon.nlp_manager.parse_biochemistry.SodiumValidator class method) (crate_anon.nlp_manager.parse_biochemistry.TotalCholesterolValidator class method) (crate_anon.nlp_manager.parse_biochemistry.TriglyceridesValidator class method) (crate_anon.nlp_manager.parse_biochemistry.TshValidator class method) (crate_anon.nlp_manager.parse_biochemistry.UreaValidator class method) (crate_anon.nlp_manager.parse_clinical.BmiValidator class method) (crate_anon.nlp_manager.parse_clinical.BpValidator class method) (crate_anon.nlp_manager.parse_clinical.HeightValidator class method) (crate_anon.nlp_manager.parse_clinical.WeightValidator class method) (crate_anon.nlp_manager.parse_cognitive.AceValidator class method) (crate_anon.nlp_manager.parse_cognitive.MiniAceValidator class method) (crate_anon.nlp_manager.parse_cognitive.MmseValidator class method) (crate_anon.nlp_manager.parse_cognitive.MocaValidator class method) (crate_anon.nlp_manager.parse_haematology.BasophilsValidator class method) (crate_anon.nlp_manager.parse_haematology.EosinophilsValidator class method) (crate_anon.nlp_manager.parse_haematology.EsrValidator class method) (crate_anon.nlp_manager.parse_haematology.HaematocritValidator class method) (crate_anon.nlp_manager.parse_haematology.HaemoglobinValidator class method) (crate_anon.nlp_manager.parse_haematology.LymphocytesValidator class method) (crate_anon.nlp_manager.parse_haematology.MonocytesValidator class method) (crate_anon.nlp_manager.parse_haematology.NeutrophilsValidator class method) (crate_anon.nlp_manager.parse_haematology.PlateletsValidator class method) (crate_anon.nlp_manager.parse_haematology.RBCValidator class method) (crate_anon.nlp_manager.parse_haematology.WbcValidator class method) (crate_anon.nlp_manager.regex_parser.ValidatorBase class method) get_view_names() (in module crate_anon.common.sql) get_withdrawal_email_html() (crate_anon.crateweb.consent.models.ContactRequest method) get_withdrawal_letter_html() (crate_anon.crateweb.consent.models.ContactRequest method) get_word_alternatives() (in module crate_anon.anonymise.config) get_xlsx_binary() (crate_anon.crateweb.research.models.PatientExplorer method) get_zipped_tsv_binary() (crate_anon.crateweb.research.models.PatientExplorer method) getsize() (in module crate_anon.common.memsize) Glucose (class in crate_anon.nlp_manager.parse_biochemistry) GlucoseValidator (class in crate_anon.nlp_manager.parse_biochemistry) GOR (class in crate_anon.preprocess.postcodes) gp_address_components() (crate_anon.crateweb.consent.models.PatientLookupBase method) gp_address_components_str() (crate_anon.crateweb.consent.models.PatientLookupBase method) gp_name_address_str() (crate_anon.crateweb.consent.models.PatientLookupBase method) gp_title_forename_surname() (crate_anon.crateweb.consent.models.PatientLookupBase method) guess_mimetype() (in module crate_anon.crateweb.core.utils)

H

hack_django_pyodbc_azure_cursorwrapper() (in module crate_anon.crateweb.research.models) Haematocrit (class in crate_anon.nlp_manager.parse_haematology) HaematocritValidator (class in crate_anon.nlp_manager.parse_haematology) Haemoglobin (class in crate_anon.nlp_manager.parse_haematology) HaemoglobinValidator (class in crate_anon.nlp_manager.parse_haematology) handle() (crate_anon.crateweb.consent.management.commands.email_rdbm.Command method) (crate_anon.crateweb.consent.management.commands.fetch_optouts.Command method) (crate_anon.crateweb.consent.management.commands.lookup_consent.Command method) (crate_anon.crateweb.consent.management.commands.lookup_patient.Command method) (crate_anon.crateweb.consent.management.commands.populate.Command method) (crate_anon.crateweb.consent.management.commands.resubmit_unprocessed_tasks.Command method) (crate_anon.crateweb.consent.management.commands.test_email.Command method) (crate_anon.crateweb.core.management.commands.runcpserver.Command method) has_active_destination (crate_anon.anonymise.dd.DataDictionary attribute) has_add_permission() (crate_anon.crateweb.extra.admin.EditOnceOnlyModelAdmin method) (crate_anon.crateweb.extra.admin.EditOnlyModelAdmin method) (crate_anon.crateweb.extra.admin.ReadOnlyModelAdmin method) has_been_sent() (crate_anon.crateweb.consent.models.Email method) has_change_permission() (crate_anon.crateweb.core.admin.ContactRequestResAdmin method) (crate_anon.crateweb.core.admin.EmailResAdmin method) (crate_anon.crateweb.core.admin.LetterResAdmin method) (crate_anon.crateweb.core.admin.PatientResponseMgrAdmin method) (crate_anon.crateweb.extra.admin.AllStaffReadOnlyModelAdmin method) has_delete_permission() (crate_anon.crateweb.extra.admin.AddOnlyModelAdmin method) (crate_anon.crateweb.extra.admin.EditOnceOnlyModelAdmin method) (crate_anon.crateweb.extra.admin.EditOnlyModelAdmin method) (crate_anon.crateweb.extra.admin.ReadOnlyModelAdmin method) has_first_name() (crate_anon.linkage.fuzzy_id_match.Person method) has_module_permission() (crate_anon.crateweb.core.admin.ContactRequestResAdmin method) (crate_anon.crateweb.core.admin.EmailResAdmin method) (crate_anon.crateweb.core.admin.LetterResAdmin method) (crate_anon.crateweb.extra.admin.AllStaffReadOnlyModelAdmin method) has_mrid (crate_anon.crateweb.research.research_db_info.SingleResearchDatabase attribute) has_output_columns (crate_anon.crateweb.research.models.PatientExplorer attribute) (crate_anon.crateweb.research.models.PatientMultiQuery attribute) has_patient_id_query (crate_anon.crateweb.research.models.PatientExplorer attribute) (crate_anon.crateweb.research.models.PatientMultiQuery attribute)

has_table_and_column (crate_anon.common.sql.ColumnId attribute) hash() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) hash64 (crate_anon.crateweb.research.models.PatientMultiQuery attribute) hash_identity_file() (in module crate_anon.linkage.fuzzy_id_match) hash_object() (crate_anon.anonymise.config.Config method) hash_password() (in module crate_anon.nlp_webserver.security) hashed() (crate_anon.linkage.fuzzy_id_match.Person method) hashed_csv_dict() (crate_anon.linkage.fuzzy_id_match.Person method) HbA1c (class in crate_anon.nlp_manager.parse_biochemistry) hba1c_mmol_per_mol_from_percent() (in module crate_anon.nlp_manager.parse_biochemistry) HbA1cValidator (class in crate_anon.nlp_manager.parse_biochemistry) HDLCholesterol (class in crate_anon.nlp_manager.parse_biochemistry) HDLCholesterolValidator (class in crate_anon.nlp_manager.parse_biochemistry) HealthAuthority (class in crate_anon.preprocess.postcodes) HealthBoardNI (class in crate_anon.preprocess.postcodes) HealthBoardSC (class in crate_anon.preprocess.postcodes) Height (class in crate_anon.nlp_manager.parse_clinical) HeightValidator (class in crate_anon.nlp_manager.parse_clinical) HelpUrl (class in crate_anon.common.constants) Highlight (class in crate_anon.crateweb.research.models) Highlight.DoesNotExist Highlight.MultipleObjectsReturned highlight_activate() (in module crate_anon.crateweb.research.views) highlight_deactivate() (in module crate_anon.crateweb.research.views) highlight_delete() (in module crate_anon.crateweb.research.views) highlight_edit_select() (in module crate_anon.crateweb.research.views) highlight_text() (in module crate_anon.crateweb.research.html_functions) home() (in module crate_anon.crateweb.core.views) HSCBNI (class in crate_anon.preprocess.postcodes) html() (crate_anon.crateweb.core.utils.JavascriptBranchNode method) (crate_anon.crateweb.core.utils.JavascriptLeafNode method) (crate_anon.crateweb.core.utils.JavascriptTree method) (crate_anon.crateweb.core.utils.JavascriptTreeNode method) html_form_date_to_python() (in module crate_anon.crateweb.research.forms) html_summary (crate_anon.crateweb.consent.models.Study attribute) HtmlElementCounter (class in crate_anon.crateweb.research.html_functions)

I

identical_record_exists_by_hash() (in module crate_anon.anonymise.anonymise) identical_record_exists_by_pk() (in module crate_anon.anonymise.anonymise) identifier() (crate_anon.common.sql.SchemaId method) (crate_anon.common.sql.TableId method) IMDLookupEN (class in crate_anon.preprocess.postcodes) IMDLookupNI (class in crate_anon.preprocess.postcodes) IMDLookupSC (class in crate_anon.preprocess.postcodes) IMDLookupWA (class in crate_anon.preprocess.postcodes) inclusion_values (crate_anon.anonymise.ddr.DataDictionaryRow attribute) INDEX (class in crate_anon.anonymise.constants) init_row_counts() (crate_anon.anonymise.config.Config method) InputFieldConfig (class in crate_anon.nlp_manager.input_field_config) InputFieldConfigKeys (class in crate_anon.nlp_manager.constants) int_or_none() (crate_anon.nlp_manager.parse_medex.Medex static method) int_validator() (in module crate_anon.crateweb.research.forms) is_clinician() (in module crate_anon.crateweb.core.utils) is_consent_mode_unknown() (crate_anon.crateweb.consent.models.ContactRequest method)

is_developer() (in module crate_anon.crateweb.core.utils) is_extra_form() (crate_anon.crateweb.consent.models.ContactRequest method) is_field_blacklisted() (crate_anon.anonymise.config.DatabaseSafeConfig method) is_my_job_by_hash() (in module crate_anon.common.parallel) is_my_job_by_hash_prehashed() (in module crate_anon.common.parallel) is_my_job_by_int() (in module crate_anon.common.parallel) is_pk_integer() (crate_anon.nlp_manager.input_field_config.InputFieldConfig method) is_sql_column_type_textual() (in module crate_anon.common.sql) is_superuser() (in module crate_anon.crateweb.core.utils) is_table_blacklisted() (crate_anon.anonymise.config.DatabaseSafeConfig method) is_tabular() (crate_anon.nlp_manager.cloud_parser.Cloud method) is_under_15() (crate_anon.crateweb.consent.models.PatientLookupBase method) is_under_16() (crate_anon.crateweb.consent.models.PatientLookupBase method) is_valid (crate_anon.common.sql.ColumnId attribute) is_valid_postcode() (crate_anon.linkage.fuzzy_id_match.MatchConfig method) (crate_anon.linkage.fuzzy_id_match.PostcodeFrequencyInfo method) IZ2005 (class in crate_anon.preprocess.postcodes) IZ2011 (class in crate_anon.preprocess.postcodes)

J

javascript_quoted_string_from_html() (in module crate_anon.crateweb.core.utils) JavascriptBranchNode (class in crate_anon.crateweb.core.utils) JavascriptLeafNode (class in crate_anon.crateweb.core.utils) JavascriptTree (class in crate_anon.crateweb.core.utils) JavascriptTreeNode (class in crate_anon.crateweb.core.utils)

JoinInfo (class in crate_anon.common.sql) js_action_dict_key_value() (crate_anon.crateweb.core.utils.JavascriptLeafNode method) js_data() (crate_anon.crateweb.core.utils.JavascriptTree method) js_str_html() (crate_anon.crateweb.core.utils.JavascriptTree method) json_compact() (in module crate_anon.crateweb.research.archive_func)

K

KeywordProcessorFixed (class in crate_anon.common.bugfix_flashtext)

kg_from_st_lb_oz() (in module crate_anon.nlp_manager.regex_units)

L

LAD (class in crate_anon.preprocess.postcodes) latest_date() (in module crate_anon.crateweb.consent.utils) LAU (class in crate_anon.preprocess.postcodes) launch_archive() (in module crate_anon.crateweb.research.views) LCG (class in crate_anon.preprocess.postcodes) LDLCholesterol (class in crate_anon.nlp_manager.parse_biochemistry) LDLCholesterolValidator (class in crate_anon.nlp_manager.parse_biochemistry) LEA (class in crate_anon.preprocess.postcodes) Leaflet (class in crate_anon.crateweb.consent.models) Leaflet.DoesNotExist Leaflet.MultipleObjectsReturned leaflet_upload_to() (in module crate_anon.crateweb.consent.models) LeafletMgrAdmin (class in crate_anon.crateweb.core.admin) LeafletResAdmin (class in crate_anon.crateweb.core.admin) learning_alternative_regex_groups() (in module crate_anon.nlp_manager.regex_parser) LEP (class in crate_anon.preprocess.postcodes) Letter (class in crate_anon.crateweb.consent.models) Letter.DoesNotExist Letter.MultipleObjectsReturned LetterDevAdmin (class in crate_anon.crateweb.core.admin) LetterMgrAdmin (class in crate_anon.crateweb.core.admin) LetterResAdmin (class in crate_anon.crateweb.core.admin) LetterSendingStatusFilter (class in crate_anon.crateweb.core.admin) lex_freq() (in module crate_anon.nlp_manager.build_medex_itself) lex_route() (in module crate_anon.nlp_manager.build_medex_itself) LHB2006 (class in crate_anon.preprocess.postcodes) LHB2014 (class in crate_anon.preprocess.postcodes) Lithium (class in crate_anon.nlp_manager.parse_biochemistry)

LithiumValidator (class in crate_anon.nlp_manager.parse_biochemistry) LLSC (class in crate_anon.preprocess.postcodes) load_dd() (crate_anon.anonymise.config.Config method) local_structure_help() (in module crate_anon.crateweb.research.views) log_odds_same() (crate_anon.linkage.fuzzy_id_match.Person method) log_odds_same_hashed() (crate_anon.linkage.fuzzy_id_match.TestCondition method) log_odds_same_plaintext() (crate_anon.linkage.fuzzy_id_match.TestCondition method) login_view() (in module crate_anon.crateweb.core.auth_views) logout_view() (in module crate_anon.crateweb.core.auth_views) lookup_consent() (in module crate_anon.crateweb.consent.lookup) lookup_cpft_crs() (in module crate_anon.crateweb.consent.lookup_crs) lookup_cpft_rio_crate_preprocessed() (in module crate_anon.crateweb.consent.lookup_rio) lookup_cpft_rio_generic() (in module crate_anon.crateweb.consent.lookup_rio) lookup_cpft_rio_rcep() (in module crate_anon.crateweb.consent.lookup_rio) lookup_dummy_clinical() (in module crate_anon.crateweb.consent.lookup_dummy) lookup_from_fragment() (in module crate_anon.preprocess.rio_view_func) lookup_from_fragment_first_row() (in module crate_anon.preprocess.rio_view_func) lookup_from_fragment_first_row_outer_apply() (in module crate_anon.preprocess.rio_view_func) lookup_patient() (in module crate_anon.crateweb.consent.lookup) lookups() (crate_anon.crateweb.core.admin.ClinicianRespondedListFilter method) (crate_anon.crateweb.core.admin.EmailSentListFilter method) (crate_anon.crateweb.core.admin.LetterSendingStatusFilter method) lower_case_words_from_file() (in module crate_anon.anonymise.scrub) LSOAEW2004 (class in crate_anon.preprocess.postcodes) LSOAEW2011 (class in crate_anon.preprocess.postcodes) LSOANI2005 (class in crate_anon.preprocess.postcodes) Lymphocytes (class in crate_anon.nlp_manager.parse_haematology) LymphocytesValidator (class in crate_anon.nlp_manager.parse_haematology)

M

m_from_ft_in() (in module crate_anon.nlp_manager.regex_units) m_from_m_cm() (in module crate_anon.nlp_manager.regex_units) main() (in module crate_anon.anonymise.anonymise_cli) (in module crate_anon.anonymise.fetch_wordlists) (in module crate_anon.anonymise.launch_multiprocess_anonymiser) (in module crate_anon.anonymise.make_demo_database) (in module crate_anon.anonymise.test_anonymisation) (in module crate_anon.anonymise.test_extract_text) (in module crate_anon.crateweb.consent.management.commands.fetch_optouts) (in module crate_anon.crateweb.consent.management.commands.lookup_consent) (in module crate_anon.crateweb.consent.management.commands.lookup_patient) (in module crate_anon.crateweb.core.management.commands.runcpserver) (in module crate_anon.crateweb.manage) (in module crate_anon.linkage.bulk_hash) (in module crate_anon.linkage.fuzzy_id_match) (in module crate_anon.nlp_manager.build_gate_java_interface) (in module crate_anon.nlp_manager.build_medex_itself) (in module crate_anon.nlp_manager.build_medex_java_interface) (in module crate_anon.nlp_manager.launch_multiprocess_nlp) (in module crate_anon.nlp_manager.nlp_manager) (in module crate_anon.nlp_webserver.initialize_db) (in module crate_anon.nlp_webserver.print_demos) (in module crate_anon.preprocess.postcodes) (in module crate_anon.preprocess.preprocess_pcmis) (in module crate_anon.preprocess.preprocess_rio) (in module crate_anon.tools.celery_status) (in module crate_anon.tools.email_rdbm) (in module crate_anon.tools.launch_celery) (in module crate_anon.tools.launch_cherrypy_server) (in module crate_anon.tools.launch_docs) (in module crate_anon.tools.launch_flower) (in module crate_anon.tools.launch_nlp_webserver_gunicorn) (in module crate_anon.tools.print_crateweb_demo_config) (in module crate_anon.tools.winservice) make_collapsible_sql_query() (in module crate_anon.crateweb.research.html_functions) make_cpft_email_address() (in module crate_anon.crateweb.consent.utils) make_deletion_data() (in module crate_anon.linkage.fuzzy_id_match) make_dummy_objects() (in module crate_anon.crateweb.consent.models) make_excel() (crate_anon.crateweb.research.models.Query method) make_forename_surname_email_address() (in module crate_anon.crateweb.consent.utils) make_highlight_replacement_regex() (in module crate_anon.crateweb.research.html_functions) make_identifier() (in module crate_anon.common.sql) make_nlp_parser() (in module crate_anon.nlp_manager.all_processors) make_nlp_parser_unconfigured() (in module crate_anon.nlp_manager.all_processors) make_pdf_on_disk_from_html_with_django_settings() (in module crate_anon.crateweb.extra.pdf) make_query() (crate_anon.crateweb.research.models.PatientMultiQuery method) make_result_element() (in module crate_anon.crateweb.research.html_functions) make_string_literal() (in module crate_anon.common.sql) make_tables() (crate_anon.nlp_manager.base_nlp_parser.TableMaker method) make_tsv() (crate_anon.crateweb.research.models.Query method) make_typo_data() (in module crate_anon.linkage.fuzzy_id_match) make_unique_id() (in module crate_anon.nlp_webserver.models) make_url() (crate_anon.common.constants.HelpUrl static method) make_wbc_regex() (crate_anon.nlp_manager.parse_haematology.WbcBase static method) mandatory_scrubbers_unfulfilled (crate_anon.anonymise.patient.Patient attribute) manual_patient_id_query (crate_anon.crateweb.research.models.PatientMultiQuery attribute) ManualPeQueryForm (class in crate_anon.crateweb.research.forms) mark_audited() (crate_anon.crateweb.research.models.PatientExplorer method) (crate_anon.crateweb.research.models.Query method) mark_deleted() (crate_anon.crateweb.research.models.PatientExplorer method) (crate_anon.crateweb.research.models.Query method) mark_sent() (crate_anon.crateweb.consent.models.Letter method) master_pid (crate_anon.anonymise.ddr.DataDictionaryRow attribute) MatchConfig (class in crate_anon.linkage.fuzzy_id_match) matches_fielddef() (crate_anon.anonymise.ddr.DataDictionaryRow method) (in module crate_anon.common.sql) matches_hashed() (crate_anon.linkage.fuzzy_id_match.TestCondition method)

matches_plaintext() (crate_anon.linkage.fuzzy_id_match.TestCondition method) matches_tabledef() (crate_anon.anonymise.ddr.DataDictionaryRow method) (in module crate_anon.common.sql) Medex (class in crate_anon.nlp_manager.parse_medex) metadata (crate_anon.anonymise.dbholder.DatabaseHolder attribute) metaphone_frequency() (crate_anon.linkage.fuzzy_id_match.NameFrequencyInfo method) MgrAdminSite (class in crate_anon.crateweb.core.admin) micromolar_from_mg_per_dl() (in module crate_anon.nlp_manager.regex_units) Migration (class in crate_anon.crateweb.consent.migrations.0001_initial) (class in crate_anon.crateweb.consent.migrations.0002_auto_20160621_1511) (class in crate_anon.crateweb.consent.migrations.0003_auto_20160628_1301) (class in crate_anon.crateweb.consent.migrations.0004_auto_20160703_1530) (class in crate_anon.crateweb.consent.migrations.0005_auto_20170203_1348) (class in crate_anon.crateweb.consent.migrations.0006_auto_20170206_1617) (class in crate_anon.crateweb.consent.migrations.0007_auto_20170228_1052) (class in crate_anon.crateweb.consent.migrations.0008_auto_20170507_1218) (class in crate_anon.crateweb.consent.migrations.0009_auto_20180629_1132) (class in crate_anon.crateweb.consent.migrations.0010_auto_20180629_1238) (class in crate_anon.crateweb.consent.migrations.0011_auto_20181022_0801) (class in crate_anon.crateweb.consent.migrations.0012_auto_20181102_1335) (class in crate_anon.crateweb.consent.migrations.0013_auto_20181223_1124) (class in crate_anon.crateweb.consent.migrations.0014_contactrequest_rdbm_to_contact_pt) (class in crate_anon.crateweb.consent.migrations.0015_auto_20190104_1255) (class in crate_anon.crateweb.consent.migrations.0016_auto_20190212_1118) (class in crate_anon.crateweb.research.migrations.0001_initial) (class in crate_anon.crateweb.research.migrations.0002_auto_20170203_1348) (class in crate_anon.crateweb.research.migrations.0003_patientexplorer_patientexploreraudit) (class in crate_anon.crateweb.research.migrations.0004_auto_20170212_0137) (class in crate_anon.crateweb.research.migrations.0005_query_sql_hash) (class in crate_anon.crateweb.research.migrations.0006_patientexplorer_pmq_hash) (class in crate_anon.crateweb.research.migrations.0007_sitewidequery) (class in crate_anon.crateweb.research.migrations.0008_query_display) (class in crate_anon.crateweb.research.migrations.0009_query_no_null) (class in crate_anon.crateweb.research.migrations.0010_query_last_run) (class in crate_anon.crateweb.research.migrations.0011_auto_20190521_2109) (class in crate_anon.crateweb.research.migrations.0012_archiveattachmentaudit_archivetemplateaudit) (class in crate_anon.crateweb.userprofile.migrations.0001_initial) (class in crate_anon.crateweb.userprofile.migrations.0002_userprofile_sql_scratchpad) (class in crate_anon.crateweb.userprofile.migrations.0003_auto_20160628_1301) (class in crate_anon.crateweb.userprofile.migrations.0004_userprofile_patients_per_page) (class in crate_anon.crateweb.userprofile.migrations.0005_userprofile_patient_multiquery_scratchpad) (class in crate_anon.crateweb.userprofile.migrations.0006_auto_20170212_0137) (class in crate_anon.crateweb.userprofile.migrations.0007_auto_20170507_1218) millimolar_from_mg_per_dl() (in module crate_anon.nlp_manager.regex_units) MiniAce (class in crate_anon.nlp_manager.parse_cognitive) MiniAceValidator (class in crate_anon.nlp_manager.parse_cognitive) Missing (class in crate_anon.crateweb.core.management.commands.runcpserver) Mmse (class in crate_anon.nlp_manager.parse_cognitive) MmseValidator (class in crate_anon.nlp_manager.parse_cognitive) Moca (class in crate_anon.nlp_manager.parse_cognitive) MocaValidator (class in crate_anon.nlp_manager.parse_cognitive) mockup() (crate_anon.crateweb.consent.models.ContactRequest method) model (crate_anon.crateweb.core.admin.ArchiveAttachmentAuditMgrAdmin attribute) (crate_anon.crateweb.core.admin.ArchiveTemplateAuditMgrAdmin attribute) (crate_anon.crateweb.core.admin.ConsentModeInline attribute) (crate_anon.crateweb.core.admin.EmailDevAdmin attribute) (crate_anon.crateweb.core.admin.PatientExplorerAuditMgrAdmin attribute) (crate_anon.crateweb.core.admin.QueryMgrAdmin attribute) (crate_anon.crateweb.core.admin.StudyInline attribute) (crate_anon.crateweb.core.admin.UserProfileInline attribute) Monocytes (class in crate_anon.nlp_manager.parse_haematology) MonocytesValidator (class in crate_anon.nlp_manager.parse_haematology) MPID (crate_anon.crateweb.research.research_db_info.PatientFieldPythonTypes attribute) MRID (crate_anon.crateweb.research.research_db_info.PatientFieldPythonTypes attribute) MSOAEW2004 (class in crate_anon.preprocess.postcodes) MSOAEW2011 (class in crate_anon.preprocess.postcodes) mutate_name() (in module crate_anon.linkage.fuzzy_id_match) mutate_postcode() (in module crate_anon.linkage.fuzzy_id_match)

N

n_middle_names() (crate_anon.linkage.fuzzy_id_match.Person method) n_postcodes() (crate_anon.linkage.fuzzy_id_match.Person method) name_frequency() (crate_anon.linkage.fuzzy_id_match.NameFrequencyInfo method) NameFrequencyInfo (class in crate_anon.linkage.fuzzy_id_match) NameInfo (class in crate_anon.anonymise.fetch_wordlists) NationalPark (class in crate_anon.preprocess.postcodes) NCP (class in crate_anon.preprocess.postcodes) Neutrophils (class in crate_anon.nlp_manager.parse_haematology) NeutrophilsValidator (class in crate_anon.nlp_manager.parse_haematology) new_trid() (crate_anon.anonymise.models.TridRecord class method) next() (crate_anon.crateweb.research.html_functions.HtmlElementCounter method) nlp_source_url() (in module crate_anon.crateweb.research.archive_func) NlpConfigPrefixes (class in crate_anon.nlp_manager.constants) NlpDefConfigKeys (class in crate_anon.nlp_manager.constants) NlpDefinition (class in crate_anon.nlp_manager.nlp_definition) NlpDefValues (class in crate_anon.nlp_manager.constants) NlpOutputConfigKeys (class in crate_anon.nlp_manager.constants) NlpRecord (class in crate_anon.nlp_manager.models) nlprp_description() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser class method) nlprp_is_default_version() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser class method) nlprp_local_processors() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) nlprp_local_processors_json() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method)

nlprp_name() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser class method) (crate_anon.nlp_manager.parse_gate.Gate method) nlprp_processor_info() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser method) nlprp_processor_info_json() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser method) nlprp_schema_info() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser method) (crate_anon.nlp_manager.parse_gate.Gate method) nlprp_title() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser class method) nlprp_version() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser class method) NlpSourceResult (class in crate_anon.crateweb.research.views) no_query_selected() (in module crate_anon.crateweb.research.views) NonspecificScrubber (class in crate_anon.anonymise.scrub) Note (class in crate_anon.anonymise.make_demo_database) notify() (crate_anon.common.sql.TransactionSizeLimiter method) notify_dest_db_transaction() (crate_anon.anonymise.config.Config method) notify_rdbm_of_bad_progress() (crate_anon.crateweb.consent.models.ContactRequest method) notify_rdbm_of_good_progress() (crate_anon.crateweb.consent.models.ContactRequest method) notify_rdbm_of_work() (crate_anon.crateweb.consent.models.ConsentMode method) (crate_anon.crateweb.consent.models.ContactRequest method) notify_src_bytes_read() (crate_anon.anonymise.config.Config method) notify_transaction() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) null_literals() (crate_anon.nlp_manager.output_user_config.OutputUserConfig method) NumeratorOutOfDenominatorParser (class in crate_anon.nlp_manager.regex_parser) NumericalResultParser (class in crate_anon.nlp_manager.regex_parser)

O

OAClassification (class in crate_anon.preprocess.postcodes) ok_to_run (crate_anon.crateweb.research.models.PatientMultiQuery attribute) opt_bool() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) opt_int() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) opt_out_info (crate_anon.anonymise.ddr.DataDictionaryRow attribute) opt_str() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) opt_strlist() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) opting_out() (crate_anon.anonymise.models.OptOutMpid class method) (crate_anon.anonymise.models.OptOutPid class method) opting_out_mpid() (in module crate_anon.anonymise.anonymise) opting_out_pid() (in module crate_anon.anonymise.anonymise)

OPTIONAL_POC (in module crate_anon.nlp_manager.regex_parser) OPTIONAL_RESULTS_IGNORABLES (in module crate_anon.nlp_manager.regex_parser) OptOutMpid (class in crate_anon.anonymise.models) OptOutPid (class in crate_anon.anonymise.models) out_of() (in module crate_anon.nlp_manager.regex_units) out_of_anything() (in module crate_anon.nlp_manager.regex_units) output_cols_html (crate_anon.crateweb.research.models.PatientMultiQuery attribute) output_columns (crate_anon.crateweb.research.models.PatientMultiQuery attribute) OutputUserConfig (class in crate_anon.nlp_manager.output_user_config) overall_progress() (crate_anon.anonymise.config.Config method) overflow_div() (crate_anon.crateweb.research.html_functions.HtmlElementCounter method) (in module crate_anon.crateweb.research.html_functions)

P

p_d_given_h (crate_anon.linkage.fuzzy_id_match.Comparison attribute) (crate_anon.linkage.fuzzy_id_match.DirectComparison attribute) (crate_anon.linkage.fuzzy_id_match.FullOrPartialComparison attribute) (crate_anon.linkage.fuzzy_id_match.SimpleComparison attribute) p_d_given_not_h (crate_anon.linkage.fuzzy_id_match.Comparison attribute) (crate_anon.linkage.fuzzy_id_match.DirectComparison attribute) (crate_anon.linkage.fuzzy_id_match.FullOrPartialComparison attribute) (crate_anon.linkage.fuzzy_id_match.SimpleComparison attribute) p_middle_name_present() (crate_anon.linkage.fuzzy_id_match.MatchConfig method) paginate() (in module crate_anon.crateweb.core.utils) PanSHA (class in crate_anon.preprocess.postcodes) Parish (class in crate_anon.preprocess.postcodes) parse() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser method) (crate_anon.nlp_manager.parse_clinical.Bp method) (crate_anon.nlp_manager.parse_clinical.Height method) (crate_anon.nlp_manager.parse_clinical.Weight method) (crate_anon.nlp_manager.parse_gate.Gate method) (crate_anon.nlp_manager.parse_medex.Medex method) (crate_anon.nlp_manager.regex_parser.NumeratorOutOfDenominatorParser method) (crate_anon.nlp_manager.regex_parser.NumericalResultParser method) (crate_anon.nlp_manager.regex_parser.SimpleNumericalResultParser method) (crate_anon.nlp_manager.regex_parser.ValidatorBase method) parse_privileged_sql() (in module crate_anon.crateweb.research.views) parser_add_from_tables() (in module crate_anon.common.sql) parser_add_result_column() (in module crate_anon.common.sql) password_change() (in module crate_anon.crateweb.core.auth_views) Patient (class in crate_anon.anonymise.make_demo_database) (class in crate_anon.anonymise.patient) patient_conditions (crate_anon.crateweb.research.models.PatientMultiQuery attribute) patient_id_query() (crate_anon.crateweb.research.models.PatientMultiQuery method) patient_processing_fn() (in module crate_anon.anonymise.anonymise) patient_template_html() (in module crate_anon.crateweb.research.archive_func) PatientExplorer (class in crate_anon.crateweb.research.models) PatientExplorer.DoesNotExist PatientExplorer.MultipleObjectsReturned PatientExplorerAudit (class in crate_anon.crateweb.research.models) PatientExplorerAudit.DoesNotExist PatientExplorerAudit.MultipleObjectsReturned PatientExplorerAuditMgrAdmin (class in crate_anon.crateweb.core.admin) PatientFieldPythonTypes (class in crate_anon.crateweb.research.research_db_info) PatientInfo (class in crate_anon.anonymise.models) PatientLookup (class in crate_anon.crateweb.consent.models) PatientLookup.DoesNotExist PatientLookup.MultipleObjectsReturned PatientLookupBase (class in crate_anon.crateweb.consent.models) PatientLookupDevAdmin (class in crate_anon.crateweb.core.admin) PatientMultiQuery (class in crate_anon.crateweb.research.models) PatientResponse (class in crate_anon.crateweb.consent.models) PatientResponse.DoesNotExist PatientResponse.MultipleObjectsReturned PatientResponseAdminForm (class in crate_anon.crateweb.core.admin) PatientResponseDevAdmin (class in crate_anon.crateweb.core.admin) PatientResponseMgrAdmin (class in crate_anon.crateweb.core.admin) PcmisConfigOptions (class in crate_anon.preprocess.preprocess_pcmis) PCT2005 (class in crate_anon.preprocess.postcodes) PCT2011 (class in crate_anon.preprocess.postcodes) pdf_css() (in module crate_anon.crateweb.consent.utils) pe_activate() (in module crate_anon.crateweb.research.views) pe_build() (in module crate_anon.crateweb.research.views) pe_choose() (in module crate_anon.crateweb.research.views) pe_data_finder_excel() (in module crate_anon.crateweb.research.views) pe_data_finder_results() (in module crate_anon.crateweb.research.views) pe_delete() (in module crate_anon.crateweb.research.views) pe_edit() (in module crate_anon.crateweb.research.views) pe_excel() (in module crate_anon.crateweb.research.views) pe_monster_results() (in module crate_anon.crateweb.research.views) pe_one_table() (in module crate_anon.crateweb.research.views) pe_results() (in module crate_anon.crateweb.research.views) pe_submit() (in module crate_anon.crateweb.research.views) pe_table_browser() (in module crate_anon.crateweb.research.views) pe_tsv_zip() (in module crate_anon.crateweb.research.views) per() (in module crate_anon.nlp_manager.regex_units) Person (class in crate_anon.linkage.fuzzy_id_match) person_matches() (crate_anon.linkage.fuzzy_id_match.MatchConfig method) PersonalizedScrubber (class in crate_anon.anonymise.scrub) PFA (class in crate_anon.preprocess.postcodes) PID (crate_anon.crateweb.research.research_db_info.PatientFieldPythonTypes attribute) pid_rid_lookup() (in module crate_anon.crateweb.research.views)

pid_rid_lookup_with_db() (in module crate_anon.crateweb.research.views) PidLookup (class in crate_anon.crateweb.research.models) pidlookup() (in module crate_anon.crateweb.research.views) PidLookup.DoesNotExist PidLookup.MultipleObjectsReturned pidlookup_with_db() (in module crate_anon.crateweb.research.views) PidLookupForm (class in crate_anon.crateweb.research.forms) pk (crate_anon.anonymise.ddr.DataDictionaryRow attribute) plaintext_csv_dict() (crate_anon.linkage.fuzzy_id_match.Person method) Platelets (class in crate_anon.nlp_manager.parse_haematology) PlateletsValidator (class in crate_anon.nlp_manager.parse_haematology) plausible_candidate() (crate_anon.linkage.fuzzy_id_match.Person method) populate() (crate_anon.crateweb.consent.models.Leaflet static method) populate_generic_lookup_table() (in module crate_anon.preprocess.postcodes) populate_postcode_table() (in module crate_anon.preprocess.postcodes) PopWeightedCentroidsLsoa2011 (class in crate_anon.preprocess.postcodes) possible_processor_names() (in module crate_anon.nlp_manager.all_processors) possible_processor_table() (in module crate_anon.nlp_manager.all_processors) Postcode (class in crate_anon.preprocess.postcodes) postcode_sector_freq() (crate_anon.linkage.fuzzy_id_match.MatchConfig method) postcode_sector_frequency() (crate_anon.linkage.fuzzy_id_match.PostcodeFrequencyInfo method) postcode_sector_population() (crate_anon.linkage.fuzzy_id_match.MatchConfig method) (crate_anon.linkage.fuzzy_id_match.PostcodeFrequencyInfo method) postcode_unit_freq() (crate_anon.linkage.fuzzy_id_match.MatchConfig method) postcode_unit_frequency() (crate_anon.linkage.fuzzy_id_match.PostcodeFrequencyInfo method) postcode_unit_population() (crate_anon.linkage.fuzzy_id_match.MatchConfig method) (crate_anon.linkage.fuzzy_id_match.PostcodeFrequencyInfo method) PostcodeFrequencyInfo (class in crate_anon.linkage.fuzzy_id_match) posterior_log_odds() (crate_anon.linkage.fuzzy_id_match.Comparison method) Potassium (class in crate_anon.nlp_manager.parse_biochemistry) PotassiumValidator (class in crate_anon.nlp_manager.parse_biochemistry) power() (in module crate_anon.nlp_manager.regex_units) pre() (in module crate_anon.crateweb.research.html_functions) prettified_chunks (crate_anon.crateweb.research.models.SitewideQuery attribute) prettify_sql_and_args() (in module crate_anon.crateweb.research.html_functions) prettify_sql_html() (in module crate_anon.crateweb.research.html_functions) primary_pid (crate_anon.anonymise.ddr.DataDictionaryRow attribute) print_cloud_processors() (in module crate_anon.nlp_manager.nlp_manager) print_compiled_regex_results() (in module crate_anon.nlp_manager.regex_test) print_info() (crate_anon.nlp_manager.base_nlp_parser.TableMaker class method) (crate_anon.nlp_manager.parse_clinical.Bp class method) (crate_anon.nlp_manager.parse_gate.Gate class method) (crate_anon.nlp_manager.parse_medex.Medex class method) (crate_anon.nlp_manager.regex_parser.NumeratorOutOfDenominatorParser method) (crate_anon.nlp_manager.regex_parser.NumericalResultParser method) (crate_anon.nlp_manager.regex_parser.ValidatorBase method) print_record_counts() (in module crate_anon.common.formatting) process() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser method) process_all() (crate_anon.nlp_manager.cloud_request.CloudRequestProcess method) process_all_tables() (in module crate_anon.preprocess.preprocess_pcmis) (in module crate_anon.preprocess.preprocess_rio) process_change() (crate_anon.crateweb.consent.models.ConsentMode method) process_clindocs_table() (in module crate_anon.preprocess.preprocess_rio) process_cloud_nlp() (in module crate_anon.nlp_manager.nlp_manager) process_cloud_now() (in module crate_anon.nlp_manager.nlp_manager) process_doc() (in module crate_anon.anonymise.test_anonymisation) process_master_patient_table() (in module crate_anon.preprocess.preprocess_rio) process_nlp() (in module crate_anon.nlp_manager.nlp_manager) process_nonpatient_table() (in module crate_anon.preprocess.preprocess_rio) process_nonpatient_tables() (in module crate_anon.anonymise.anonymise) process_patient_table() (in module crate_anon.preprocess.preprocess_rio) process_patient_tables() (in module crate_anon.anonymise.anonymise) process_progress_notes() (in module crate_anon.preprocess.preprocess_rio) process_request() (crate_anon.crateweb.consent.models.ContactRequest method) process_request_main() (crate_anon.crateweb.consent.models.ContactRequest method) process_response() (crate_anon.crateweb.consent.models.PatientResponse method) process_table() (in module crate_anon.anonymise.anonymise) (in module crate_anon.preprocess.preprocess_pcmis) (in module crate_anon.preprocess.preprocess_rio) ProcessorConfigKeys (class in crate_anon.nlp_manager.constants) PseudoTempDir (class in crate_anon.nlp_manager.parse_medex) pt_address_components() (crate_anon.crateweb.consent.models.PatientLookupBase method) pt_address_components_str() (crate_anon.crateweb.consent.models.PatientLookupBase method) pt_conditions_html (crate_anon.crateweb.research.models.PatientMultiQuery attribute) pt_forename_surname() (crate_anon.crateweb.consent.models.PatientLookupBase method) pt_name_address_components() (crate_anon.crateweb.consent.models.PatientLookupBase method) pt_salutation() (crate_anon.crateweb.consent.models.PatientLookupBase method) pt_title_forename_surname() (crate_anon.crateweb.consent.models.PatientLookupBase method)

Q

Query (class in crate_anon.crateweb.research.models) Query.DoesNotExist Query.MultipleObjectsReturned query_activate() (in module crate_anon.crateweb.research.views) query_add_sitewide() (in module crate_anon.crateweb.research.views) query_build() (in module crate_anon.crateweb.research.views) query_context() (in module crate_anon.crateweb.research.views) query_count() (in module crate_anon.crateweb.research.views) query_count_current() (in module crate_anon.crateweb.research.views) query_delete() (in module crate_anon.crateweb.research.views) query_edit_select() (in module crate_anon.crateweb.research.views) query_excel() (in module crate_anon.crateweb.research.views) query_results() (in module crate_anon.crateweb.research.views)

query_results_recordwise() (in module crate_anon.crateweb.research.views) query_submit() (in module crate_anon.crateweb.research.views) query_tsv() (in module crate_anon.crateweb.research.views) QueryAudit (class in crate_anon.crateweb.research.models) QueryAudit.DoesNotExist QueryAudit.MultipleObjectsReturned QueryBase (class in crate_anon.crateweb.research.models) querybuilder_type (crate_anon.crateweb.research.research_db_info.ColumnInfo attribute) QueryBuilderForm (class in crate_anon.crateweb.research.forms) QueryMgrAdmin (class in crate_anon.crateweb.core.admin) queryset() (crate_anon.crateweb.core.admin.ClinicianRespondedListFilter method) (crate_anon.crateweb.core.admin.EmailSentListFilter method) (crate_anon.crateweb.core.admin.LetterSendingStatusFilter method)

R

raise_missing() (crate_anon.common.extendedconfigparser.ExtendedConfigParser static method) RBC (class in crate_anon.nlp_manager.parse_haematology) RBCValidator (class in crate_anon.nlp_manager.parse_haematology) read_from_file() (crate_anon.anonymise.dd.DataDictionary method) read_from_source_databases() (crate_anon.anonymise.dd.DataDictionary method) read_people() (in module crate_anon.linkage.fuzzy_id_match) read_people_2() (in module crate_anon.linkage.fuzzy_id_match) read_static_file_contents() (in module crate_anon.crateweb.consent.utils) ReadOnlyChangeList (class in crate_anon.crateweb.extra.admin) ReadOnlyModelAdmin (class in crate_anon.crateweb.extra.admin) record_lookup_table() (crate_anon.common.sql.ViewMaker method) record_lookup_table_keyfield() (crate_anon.common.sql.ViewMaker method) record_lookup_table_keyfields() (crate_anon.common.sql.ViewMaker method) reduce_to_alphanumeric() (in module crate_anon.common.stringfunc) refresh_from_primary_clinical_record() (crate_anon.crateweb.consent.models.ConsentMode class method) remove_scrub_from_alter_methods() (crate_anon.anonymise.ddr.DataDictionaryRow method) remove_whitespace() (in module crate_anon.common.stringfunc) renames() (crate_anon.nlp_manager.output_user_config.OutputUserConfig method) render_bad_pe() (in module crate_anon.crateweb.research.views) render_bad_query() (in module crate_anon.crateweb.research.views) render_bad_query_id() (in module crate_anon.crateweb.research.views) render_email_html_to_string() (in module crate_anon.crateweb.consent.utils) render_lookup() (in module crate_anon.crateweb.research.views) render_missing_pe() (in module crate_anon.crateweb.research.views) render_missing_query() (in module crate_anon.crateweb.research.views) render_pdf_html_to_string() (in module crate_anon.crateweb.consent.utils) render_resultcount() (in module crate_anon.crateweb.research.views) render_resultset() (in module crate_anon.crateweb.research.views) render_resultset_recordwise() (in module crate_anon.crateweb.research.views) reparse_select() (in module crate_anon.crateweb.research.sql_writer) replace_in_file() (in module crate_anon.nlp_manager.build_medex_itself) replace_keywords() (crate_anon.common.bugfix_flashtext.KeywordProcessorFixed method) replacement_sqlserver_pyodbc_cursorwrapper_fetchone() (in module crate_anon.crateweb.research.models) request_by_address_components() (crate_anon.crateweb.consent.models.ContactRequest method) request_index() (crate_anon.common.sql.ViewMaker method)

require_section() (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) required() (crate_anon.anonymise.ddr.DataDictionaryRow method) required_scrubber (crate_anon.anonymise.ddr.DataDictionaryRow attribute) ResearchAppConfig (class in crate_anon.crateweb.config.apps) ResearchDatabaseInfo (class in crate_anon.crateweb.research.research_db_info) researchdb_schemas (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo attribute) ResearchDbInfoKeys (class in crate_anon.crateweb.config.constants) ResearcherAdminSite (class in crate_anon.crateweb.core.admin) ResearcherSubmitContactRequestForm (class in crate_anon.crateweb.consent.forms) resend() (crate_anon.crateweb.consent.models.Email method) RestrictAdminMiddleware (class in crate_anon.crateweb.core.middleware) resultset_html_table() (in module crate_anon.crateweb.research.views) retrieve_nlp_data() (in module crate_anon.nlp_manager.nlp_manager) RID (crate_anon.crateweb.research.research_db_info.PatientFieldPythonTypes attribute) ridlookup() (in module crate_anon.crateweb.research.views) ridlookup_with_db() (in module crate_anon.crateweb.research.views) RidLookupForm (class in crate_anon.crateweb.research.forms) rio_add_audit_info() (in module crate_anon.preprocess.rio_view_func) rio_add_bay_lookup() (in module crate_anon.preprocess.rio_view_func) rio_add_carespell_lookup() (in module crate_anon.preprocess.rio_view_func) rio_add_consultant_lookup() (in module crate_anon.preprocess.rio_view_func) rio_add_diagnosis_lookup() (in module crate_anon.preprocess.rio_view_func) rio_add_gp_lookup() (in module crate_anon.preprocess.rio_view_func) rio_add_gp_lookup_with_practice() (in module crate_anon.preprocess.rio_view_func) rio_add_gp_practice_lookup() (in module crate_anon.preprocess.rio_view_func) rio_add_ims_event_lookup() (in module crate_anon.preprocess.rio_view_func) rio_add_location_lookup() (in module crate_anon.preprocess.rio_view_func) rio_add_org_contact_lookup() (in module crate_anon.preprocess.rio_view_func) rio_add_team_lookup() (in module crate_anon.preprocess.rio_view_func) rio_add_user_lookup() (in module crate_anon.preprocess.rio_view_func) rio_amend_standard_noncore() (in module crate_anon.preprocess.rio_view_func) rio_noncore_yn() (in module crate_anon.preprocess.rio_view_func) RioViewConfigOptions (class in crate_anon.preprocess.rio_view_func) runcpserver() (in module crate_anon.crateweb.core.management.commands.runcpserver) (in module crate_anon.crateweb.manage) runserver() (in module crate_anon.crateweb.manage)

S

safe_path() (in module crate_anon.crateweb.research.archive_backend) salutation() (in module crate_anon.crateweb.extra.salutation) salutation_default_title() (in module crate_anon.crateweb.extra.salutation) save() (crate_anon.crateweb.consent.models.ConsentMode method) (crate_anon.crateweb.research.models.PatientExplorer method) (crate_anon.crateweb.research.models.PidLookup method) (crate_anon.crateweb.research.models.Query method) (crate_anon.crateweb.research.models.SitewideQuery method) save_display() (in module crate_anon.crateweb.research.views) save_model() (crate_anon.crateweb.core.admin.ConsentModeMgrAdmin method) (crate_anon.crateweb.core.admin.PatientResponseMgrAdmin method) (crate_anon.crateweb.extra.admin.ReadOnlyModelAdmin method) schema (crate_anon.common.sql.ColumnId attribute) (crate_anon.common.sql.SchemaId attribute) (crate_anon.common.sql.TableId attribute) schema_id (crate_anon.common.sql.ColumnId attribute) (crate_anon.common.sql.TableId attribute) schema_identifier (crate_anon.crateweb.research.research_db_info.SingleResearchDatabase attribute) schema_infodictlist (crate_anon.crateweb.research.research_db_info.SingleResearchDatabase attribute) schema_tag (crate_anon.common.sql.SchemaId attribute) SchemaId (class in crate_anon.common.sql) scrub() (crate_anon.anonymise.patient.Patient method) (crate_anon.anonymise.scrub.NonspecificScrubber method) (crate_anon.anonymise.scrub.PersonalizedScrubber method) (crate_anon.anonymise.scrub.ScrubberBase method) (crate_anon.anonymise.scrub.WordList method) ScrubberBase (class in crate_anon.anonymise.scrub) SCRUBMETHOD (class in crate_anon.anonymise.constants) SCRUBSRC (class in crate_anon.anonymise.constants) SelectElement (class in crate_anon.crateweb.research.sql_writer) selftest() (in module crate_anon.linkage.fuzzy_id_match) semantic_rule_engine_line() (in module crate_anon.nlp_manager.build_medex_itself) send() (crate_anon.crateweb.consent.models.Email method) send_cloud_requests() (in module crate_anon.nlp_manager.nlp_manager) send_process_request() (crate_anon.nlp_manager.cloud_request.CloudRequestProcess method) serve_html_or_pdf() (in module crate_anon.crateweb.extra.pdf) serve_pdf_from_html() (in module crate_anon.crateweb.extra.pdf) ServerProcessor (class in crate_anon.nlp_webserver.server_processor) service() (crate_anon.tools.winservice.CratewebService method) set_display_list() (crate_anon.crateweb.research.models.Query method) set_distinct() (in module crate_anon.common.sql) set_distinct_within_parsed() (in module crate_anon.common.sql) set_echo() (crate_anon.anonymise.config.Config method) (crate_anon.nlp_manager.nlp_definition.NlpDefinition method) set_formatted_sql() (crate_anon.crateweb.research.models.QueryBase method) set_from_clinician_info_holder() (crate_anon.crateweb.consent.models.PatientLookup method) set_from_dict() (crate_anon.anonymise.ddr.DataDictionaryRow method) set_from_src_db_info() (crate_anon.anonymise.ddr.DataDictionaryRow method) set_from_text() (crate_anon.anonymise.altermethod.AlterMethod method) set_gp_name_components() (crate_anon.crateweb.consent.models.PatientLookupBase method) set_mpid() (crate_anon.anonymise.models.PatientInfo method) (crate_anon.anonymise.patient.Patient method) set_node_id() (crate_anon.crateweb.core.utils.JavascriptTreeNode method) set_override_query() (crate_anon.crateweb.research.models.PatientMultiQuery method) set_parser() (crate_anon.nlp_webserver.server_processor.ServerProcessor method) set_print_not_execute() (in module crate_anon.common.sql) set_procinfo_if_correct() (crate_anon.nlp_manager.cloud_parser.Cloud method) set_queue_id() (crate_anon.nlp_manager.cloud_request.CloudRequestProcess method) set_rate_limit() (crate_anon.nlp_manager.cloud_request.CloudRequest class method) set_scrubber_info() (crate_anon.anonymise.models.PatientInfo method) set_src_sqla_coltype() (crate_anon.anonymise.ddr.DataDictionaryRow method) set_tablename() (crate_anon.nlp_manager.regex_parser.NumericalResultParser method) (crate_anon.nlp_manager.regex_parser.ValidatorBase method) SettingsKeys (class in crate_anon.crateweb.core.constants) setup_opt_out() (in module crate_anon.anonymise.anonymise) SHA2004 (class in crate_anon.preprocess.postcodes) SHA2010 (class in crate_anon.preprocess.postcodes) show_cloud_queue() (in module crate_anon.nlp_manager.nlp_manager) show_dest_counts() (in module crate_anon.anonymise.anonymise) (in module crate_anon.nlp_manager.nlp_manager) show_docs() (in module crate_anon.preprocess.postcodes) show_queue() (crate_anon.nlp_manager.cloud_request.CloudRequestQueueManagement method) show_sitewide_queries() (in module crate_anon.crateweb.research.views) show_source_counts() (in module crate_anon.anonymise.anonymise) (in module crate_anon.nlp_manager.nlp_manager) simple_lookup_join() (in module crate_anon.preprocess.rio_view_func)

simple_view_expr() (in module crate_anon.preprocess.rio_view_func) simple_view_where() (in module crate_anon.preprocess.rio_view_func) SimpleComparison (class in crate_anon.linkage.fuzzy_id_match) SimpleNumericalResultParser (class in crate_anon.nlp_manager.regex_parser) single_record_html_table() (in module crate_anon.crateweb.research.views) single_research_db (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo attribute) single_research_db_with_secret_map (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo attribute) SingleNhsNumberForm (class in crate_anon.crateweb.consent.forms) SingleResearchDatabase (class in crate_anon.crateweb.research.research_db_info) site_absolute_url() (in module crate_anon.crateweb.core.utils) sitewide_query_delete() (in module crate_anon.crateweb.research.views) sitewide_query_process() (in module crate_anon.crateweb.research.views) SitewideQuery (class in crate_anon.crateweb.research.models) SitewideQuery.DoesNotExist SitewideQuery.MultipleObjectsReturned size() (crate_anon.crateweb.consent.models.EmailAttachment method) skip_row_by_value() (crate_anon.anonymise.ddr.DataDictionaryRow method) skip_row_if_extract_text_fails() (crate_anon.anonymise.ddr.DataDictionaryRow method) Sodium (class in crate_anon.nlp_manager.parse_biochemistry) SodiumValidator (class in crate_anon.nlp_manager.parse_biochemistry) sort() (crate_anon.anonymise.dd.DataDictionary method) source_info() (in module crate_anon.crateweb.research.views) split_db_schema_table() (in module crate_anon.common.sql) split_db_schema_table_column() (in module crate_anon.common.sql) sql() (crate_anon.common.sql.WhereCondition method) sql_chunks (crate_anon.crateweb.research.models.SitewideQuery attribute) sql_fragment_cast_to_int() (in module crate_anon.common.sql) sql_select_column() (crate_anon.crateweb.research.sql_writer.SelectElement method) sql_select_from() (crate_anon.crateweb.research.sql_writer.SelectElement method) sqlhelper_drug_type() (in module crate_anon.crateweb.research.views) sqlhelper_drug_type_with_db() (in module crate_anon.crateweb.research.views) sqlhelper_text_anywhere() (in module crate_anon.crateweb.research.views) sqlhelper_text_anywhere_with_db() (in module crate_anon.crateweb.research.views) SQLHelperDrugTypeForm (class in crate_anon.crateweb.research.forms) SQLHelperFindAnywhereForm (class in crate_anon.crateweb.research.forms) SQLHelperTextAnywhereForm (class in crate_anon.crateweb.research.forms) src_db_lowercase (crate_anon.anonymise.ddr.DataDictionaryRow attribute) src_field_lowercase (crate_anon.anonymise.ddr.DataDictionaryRow attribute) src_flags (crate_anon.anonymise.ddr.DataDictionaryRow attribute) src_table_lowercase (crate_anon.anonymise.ddr.DataDictionaryRow attribute) SRCFLAG (class in crate_anon.anonymise.constants) SSR (class in crate_anon.preprocess.postcodes) standard_rio_code_lookup() (in module crate_anon.preprocess.rio_view_func) standard_rio_code_lookup_with_national_code() (in module crate_anon.preprocess.rio_view_func) standardize_name() (in module crate_anon.linkage.fuzzy_id_match) standardize_postcode() (in module crate_anon.linkage.fuzzy_id_match) start_server() (in module crate_anon.crateweb.core.management.commands.runcpserver) stop() (crate_anon.crateweb.consent.models.ContactRequest method) store_clinician_details() (crate_anon.crateweb.consent.models.ContactRequest method) str_or_none() (crate_anon.nlp_manager.parse_medex.Medex static method) str_to_coltype_general() (crate_anon.nlp_manager.cloud_parser.Cloud static method) string_time_now() (in module crate_anon.crateweb.core.utils) structure_excel() (in module crate_anon.crateweb.research.views) structure_table_long() (in module crate_anon.crateweb.research.views) structure_table_paginated() (in module crate_anon.crateweb.research.views) structure_tree() (in module crate_anon.crateweb.research.views) structure_tsv() (in module crate_anon.crateweb.research.views) Study (class in crate_anon.crateweb.consent.models) Study.DoesNotExist Study.MultipleObjectsReturned study_details() (in module crate_anon.crateweb.consent.views) study_details_upload_to() (in module crate_anon.crateweb.consent.models) study_form() (in module crate_anon.crateweb.consent.views) study_form_upload_to() (in module crate_anon.crateweb.consent.models) study_pack() (in module crate_anon.crateweb.consent.views) StudyInline (class in crate_anon.crateweb.core.admin) StudyMgrAdmin (class in crate_anon.crateweb.core.admin) StudyResAdmin (class in crate_anon.crateweb.core.admin) submit_contact_request() (in module crate_anon.crateweb.consent.views) summary_html (crate_anon.crateweb.research.models.PatientExplorer attribute) summary_html() (crate_anon.crateweb.research.models.PatientMultiQuery method) SuperuserSubmitContactRequestForm (class in crate_anon.crateweb.consent.forms) suppress_table() (crate_anon.preprocess.ddhint.DDHint method) suppress_tables() (crate_anon.preprocess.ddhint.DDHint method) surname_freq() (crate_anon.linkage.fuzzy_id_match.MatchConfig method) surname_metaphone_freq() (crate_anon.linkage.fuzzy_id_match.MatchConfig method)

T

table (crate_anon.common.sql.ColumnId attribute) (crate_anon.common.sql.TableId attribute) table_contains() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) table_id (crate_anon.common.sql.ColumnId attribute) (crate_anon.common.sql.WhereCondition attribute) (crate_anon.crateweb.research.research_db_info.ColumnInfo attribute) table_id() (crate_anon.common.sql.SchemaId method) table_is_rio_type() (in module crate_anon.preprocess.preprocess_rio) table_names (crate_anon.anonymise.dbholder.DatabaseHolder attribute) table_part() (crate_anon.common.sql.TableId method) table_str() (crate_anon.common.sql.WhereCondition method) TableId (class in crate_anon.common.sql) TableMaker (class in crate_anon.nlp_manager.base_nlp_parser) TableQueryArgs (class in crate_anon.crateweb.research.models) tables (crate_anon.nlp_manager.base_nlp_parser.TableMaker attribute) tables_containing_field() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) tag() (crate_anon.crateweb.research.html_functions.HtmlElementCounter method) talks_to_world (crate_anon.crateweb.research.research_db_info.SingleResearchDatabase attribute) team_choices() (crate_anon.crateweb.consent.models.TeamInfo class method) TeamInfo (class in crate_anon.crateweb.consent.models) TeamRep (class in crate_anon.crateweb.consent.models) TeamRep.DoesNotExist TeamRep.MultipleObjectsReturned TeamRepAdminForm (class in crate_anon.crateweb.consent.forms) TeamRepMgrAdmin (class in crate_anon.crateweb.core.admin) teams() (crate_anon.crateweb.consent.models.TeamInfo static method) template_html() (in module crate_anon.crateweb.research.archive_func) terminate() (in module crate_anon.nlp_manager.build_medex_itself) test() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser method) (crate_anon.nlp_manager.parse_biochemistry.Creatinine method) (crate_anon.nlp_manager.parse_biochemistry.Crp method) (crate_anon.nlp_manager.parse_biochemistry.Glucose method) (crate_anon.nlp_manager.parse_biochemistry.HDLCholesterol method) (crate_anon.nlp_manager.parse_biochemistry.HbA1c method) (crate_anon.nlp_manager.parse_biochemistry.LDLCholesterol method) (crate_anon.nlp_manager.parse_biochemistry.Lithium method) (crate_anon.nlp_manager.parse_biochemistry.Potassium method) (crate_anon.nlp_manager.parse_biochemistry.Sodium method) (crate_anon.nlp_manager.parse_biochemistry.TotalCholesterol method) (crate_anon.nlp_manager.parse_biochemistry.Triglycerides method) (crate_anon.nlp_manager.parse_biochemistry.Tsh method) (crate_anon.nlp_manager.parse_biochemistry.Urea method) (crate_anon.nlp_manager.parse_clinical.Bmi method) (crate_anon.nlp_manager.parse_clinical.Bp method) (crate_anon.nlp_manager.parse_clinical.Height method) (crate_anon.nlp_manager.parse_clinical.Weight method) (crate_anon.nlp_manager.parse_cognitive.Ace method) (crate_anon.nlp_manager.parse_cognitive.AceValidator method) (crate_anon.nlp_manager.parse_cognitive.MiniAce method) (crate_anon.nlp_manager.parse_cognitive.Mmse method) (crate_anon.nlp_manager.parse_cognitive.Moca method) (crate_anon.nlp_manager.parse_gate.Gate method) (crate_anon.nlp_manager.parse_haematology.Basophils method) (crate_anon.nlp_manager.parse_haematology.Eosinophils method) (crate_anon.nlp_manager.parse_haematology.Esr method) (crate_anon.nlp_manager.parse_haematology.Haematocrit method) (crate_anon.nlp_manager.parse_haematology.Haemoglobin method) (crate_anon.nlp_manager.parse_haematology.Lymphocytes method) (crate_anon.nlp_manager.parse_haematology.Monocytes method) (crate_anon.nlp_manager.parse_haematology.Neutrophils method) (crate_anon.nlp_manager.parse_haematology.Platelets method) (crate_anon.nlp_manager.parse_haematology.RBC method) (crate_anon.nlp_manager.parse_haematology.Wbc method) (crate_anon.nlp_manager.parse_medex.Medex method) (crate_anon.nlp_manager.regex_parser.ValidatorBase method)

test_all() (in module crate_anon.nlp_manager.parse_biochemistry) (in module crate_anon.nlp_manager.parse_clinical) (in module crate_anon.nlp_manager.parse_cognitive) (in module crate_anon.nlp_manager.parse_haematology) (in module crate_anon.nlp_manager.regex_parser) (in module crate_anon.nlp_manager.regex_units) test_all_processors() (in module crate_anon.nlp_manager.all_processors) test_all_regex_nlp() (in module crate_anon.nlp_manager.test_all_regex) test_anon() (in module crate_anon.anonymise.test_anonymisation) test_base_regexes() (in module crate_anon.nlp_manager.regex_parser) test_bp_parser() (crate_anon.nlp_manager.parse_clinical.Bp method) test_consent_lookup() (in module crate_anon.crateweb.consent.views) test_email_rdbm() (in module crate_anon.crateweb.consent.views) test_numerator_denominator_parser() (crate_anon.nlp_manager.regex_parser.NumeratorOutOfDenominatorParser method) test_numerical_parser() (crate_anon.nlp_manager.regex_parser.NumericalResultParser method) test_parser() (crate_anon.nlp_manager.base_nlp_parser.BaseNlpParser method) test_patient_lookup() (in module crate_anon.crateweb.consent.views) test_text_regex() (in module crate_anon.nlp_manager.regex_test) test_unit_regexes() (in module crate_anon.nlp_manager.regex_units) test_validator() (crate_anon.nlp_manager.regex_parser.ValidatorBase method) TestAnonRegexes (class in crate_anon.anonymise.anonregex) TestCondition (class in crate_anon.linkage.fuzzy_id_match) text_columns() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo method) textfinder_sql() (in module crate_anon.crateweb.research.views) textmatch() (in module crate_anon.crateweb.research.views) TextProcessingFailed times_ten_to_power() (in module crate_anon.nlp_manager.regex_numbers) title_forename_surname() (in module crate_anon.crateweb.extra.salutation) to_date() (in module crate_anon.crateweb.consent.utils) to_float() (in module crate_anon.nlp_manager.number) to_json_str() (in module crate_anon.nlp_manager.cloud_request) to_pos_float() (in module crate_anon.nlp_manager.number) toggle_distinct() (in module crate_anon.common.sql) TotalCholesterol (class in crate_anon.nlp_manager.parse_biochemistry) TotalCholesterolValidator (class in crate_anon.nlp_manager.parse_biochemistry) TransactionSizeLimiter (class in crate_anon.common.sql) translate_sql_qmark_to_percent() (in module crate_anon.common.sql) tree_id (crate_anon.crateweb.core.utils.JavascriptTree attribute) TRID (crate_anon.crateweb.research.research_db_info.PatientFieldPythonTypes attribute) TridRecord (class in crate_anon.anonymise.models) Triglycerides (class in crate_anon.nlp_manager.parse_biochemistry) TriglyceridesValidator (class in crate_anon.nlp_manager.parse_biochemistry) Tsh (class in crate_anon.nlp_manager.parse_biochemistry) TshValidator (class in crate_anon.nlp_manager.parse_biochemistry) TTWA (class in crate_anon.preprocess.postcodes)

U

unchanged() (crate_anon.anonymise.patient.Patient method) unique_identifier() (crate_anon.nlp_manager.cloud_parser.Cloud class method) unit_tests() (in module crate_anon.common.sql) (in module crate_anon.crateweb.research.sql_writer) units_by_dimension() (in module crate_anon.nlp_manager.regex_units) units_times() (in module crate_anon.nlp_manager.regex_units) update_metadata() (crate_anon.anonymise.dbholder.DatabaseHolder method) uprint() (in module crate_anon.common.stringfunc) Urea (class in crate_anon.nlp_manager.parse_biochemistry) UreaValidator (class in crate_anon.nlp_manager.parse_biochemistry) url() (crate_anon.crateweb.consent.storage.CustomFileSystemStorage method) url_with_querystring() (in module crate_anon.crateweb.core.utils) UrlKeys (class in crate_anon.crateweb.config.constants)

UrlNames (class in crate_anon.crateweb.config.constants) user_saved_so_create_profile() (in module crate_anon.crateweb.userprofile.models) UserProfile (class in crate_anon.crateweb.userprofile.models) UserProfile.DoesNotExist UserProfile.MultipleObjectsReturned UserProfileAppConfig (class in crate_anon.crateweb.config.apps) UserProfileForm (class in crate_anon.crateweb.userprofile.forms) UserProfileInline (class in crate_anon.crateweb.core.admin) uses_database_level() (crate_anon.crateweb.research.research_db_info.ResearchDatabaseInfo class method) UsForenameInfo (class in crate_anon.anonymise.fetch_wordlists) using_fulltext_index() (crate_anon.anonymise.ddr.DataDictionaryRow method) UsSurname1990Info (class in crate_anon.anonymise.fetch_wordlists) UsSurname2010Info (class in crate_anon.anonymise.fetch_wordlists) utf8len() (in module crate_anon.nlp_manager.cloud_request)

V

validate() (in module crate_anon.linkage.fuzzy_id_match) validate_blank_form() (in module crate_anon.crateweb.research.views) validate_decision() (crate_anon.crateweb.consent.models.Decision method) validate_email_request() (in module crate_anon.crateweb.consent.views) validate_letter_request() (in module crate_anon.crateweb.consent.views) validate_researcher_email_domain() (in module crate_anon.crateweb.consent.utils) ValidatorBase (class in crate_anon.nlp_manager.regex_parser) values_from_row() (in module crate_anon.preprocess.postcodes) view_email_attachment() (in module crate_anon.crateweb.consent.views) view_email_html() (in module crate_anon.crateweb.consent.views)

view_formatting_dict() (in module crate_anon.preprocess.rio_view_func) view_leaflet() (in module crate_anon.crateweb.consent.views) view_letter() (in module crate_anon.crateweb.consent.views) ViewMaker (class in crate_anon.common.sql) visibility_button() (in module crate_anon.crateweb.research.html_functions) visibility_contentdiv() (in module crate_anon.crateweb.research.html_functions) visibility_div_contentdiv() (crate_anon.crateweb.research.html_functions.HtmlElementCounter method) visibility_div_spanbutton() (crate_anon.crateweb.research.html_functions.HtmlElementCounter method) visibility_div_with_divbutton() (crate_anon.crateweb.research.html_functions.HtmlElementCounter method) (in module crate_anon.crateweb.research.html_functions)

W

waitress() (in module crate_anon.nlp_webserver.wsgi_launchers) Ward1991 (class in crate_anon.preprocess.postcodes) Ward1998 (class in crate_anon.preprocess.postcodes) Ward2005 (class in crate_anon.preprocess.postcodes) Ward2016 (class in crate_anon.preprocess.postcodes) Wbc (class in crate_anon.nlp_manager.parse_haematology) WbcBase (class in crate_anon.nlp_manager.parse_haematology) WbcValidator (class in crate_anon.nlp_manager.parse_haematology) Weight (class in crate_anon.nlp_manager.parse_clinical) WeightValidator (class in crate_anon.nlp_manager.parse_clinical) WestminsterConstituency (class in crate_anon.preprocess.postcodes)

where_allergies_current() (in module crate_anon.preprocess.rio_view_func) where_clindocs_current() (in module crate_anon.preprocess.rio_view_func) where_not_deleted_flag() (in module crate_anon.preprocess.rio_view_func) where_patient_clause() (crate_anon.crateweb.research.models.PatientMultiQuery method) where_prognotes_current() (in module crate_anon.preprocess.rio_view_func) WhereCondition (class in crate_anon.common.sql) wipe_and_recreate_destination_db() (in module crate_anon.anonymise.anonymise) wipe_destination_data_for_opt_out_patients() (in module crate_anon.anonymise.anonymise) withdraw_consent() (crate_anon.crateweb.consent.models.ContactRequest method) WordList (class in crate_anon.anonymise.scrub) write_words_to_file() (in module crate_anon.anonymise.fetch_wordlists)