fhiry package¶

Submodules¶

fhiry.base_fhiry module¶

Copyright (c) 2020 Bell Eapen

This software is released under the MIT License. https://opensource.org/licenses/MIT

class fhiry.base_fhiry.BaseFhiry(config_json=None)[source]¶

Bases: object

add_patient_id()[source]¶: Create a patientId column with the resource.id if a Patient resource or with the resource.subject.reference if other resource type

check_subject_reference(row)[source]¶

convert_object_to_list()[source]¶: Convert object to a list of codes

property delete_col_raw_coding¶

delete_unwanted_cols()[source]¶

property df¶

get_info()[source]¶

process_bundle_dict(bundle_dict)[source]¶

process_df()[source]¶

process_list(myList)[source]¶

Extracts the codes from a list of objects

Parameters: myList (list) – A list of objects
Returns: A list of codes
Return type: list

read_bundle_from_bundle_dict(bundle_dict)[source]¶

rename_cols()[source]¶

fhiry.bqsearch module¶

Copyright (c) 2023 Bell Eapen

This software is released under the MIT License. https://opensource.org/licenses/MIT

class fhiry.bqsearch.BQsearch(config_json=None)[source]¶

Bases: fhiry.base_fhiry.BaseFhiry

search(query=None)[source]¶

fhiry.fhirndjson module¶

Copyright (c) 2020 Bell Eapen

This software is released under the MIT License. https://opensource.org/licenses/MIT

class fhiry.fhirndjson.Fhirndjson(config_json=None)[source]¶

Bases: fhiry.base_fhiry.BaseFhiry

property df¶

property folder¶

process_file(file)[source]¶

process_source()[source]¶: Read a single JSON resource or a directory full of JSON resources ONLY COMMON FIELDS IN ALL resources will be mapped

read_resource_from_line(line)[source]¶

fhiry.fhirsearch module¶

class fhiry.fhirsearch.Fhirsearch(fhir_base_url, config_json=None)[source]¶

Bases: fhiry.base_fhiry.BaseFhiry

search(resource_type='Patient', search_parameters={})[source]¶

fhiry.fhirsearch.get_next_page_url(bundle_dict)[source]¶

fhiry.fhiry module¶

Copyright (c) 2020 Bell Eapen

This software is released under the MIT License. https://opensource.org/licenses/MIT

class fhiry.fhiry.Fhiry(config_json=None)[source]¶

Bases: fhiry.base_fhiry.BaseFhiry

property delete_col_raw_coding¶

property df¶

property filename¶

property folder¶

process_bundle_dict(bundle_dict)[source]¶

process_file(filename)[source]¶

process_source()[source]¶: Read a single JSON resource or a directory full of JSON resources ONLY COMMON FIELDS IN ALL resources will be mapped

read_bundle_from_file(filename)[source]¶

fhiry.parallel module¶

Copyright (c) 2023 Bell Eapen

This software is released under the MIT License. https://opensource.org/licenses/MIT

fhiry.parallel.ndjson(folder, config_json=None)[source]¶

fhiry.parallel.process(folder, config_json=None)[source]¶

Module contents¶