fhirpack.extraction package

Submodules

fhirpack.extraction.base module

class fhirpack.extraction.base.BaseExtractorMixin[source]

Bases: object

__dict__ = mappingproxy({'__module__': 'fhirpack.extraction.base', 'getReferences': <function BaseExtractorMixin.getReferences>, 'getResources': <function BaseExtractorMixin.getResources>, 'searchResources': <function BaseExtractorMixin.searchResources>, 'getAbsolutePaths': <function BaseExtractorMixin.getAbsolutePaths>, 'getURLBytes': <function BaseExtractorMixin.getURLBytes>, 'getFromFiles': <function BaseExtractorMixin.getFromFiles>, 'getDICOMInstances': <function BaseExtractorMixin.getDICOMInstances>, '__dict__': <attribute '__dict__' of 'BaseExtractorMixin' objects>, '__weakref__': <attribute '__weakref__' of 'BaseExtractorMixin' objects>, '__doc__': None, '__annotations__': {}})
__doc__ = None
__module__ = 'fhirpack.extraction.base'
__weakref__

list of weak references to the object (if defined)

getAbsolutePaths(paths: list[str], input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None)[source]
getDICOMInstances(input: Optional[list[str]] = None, operateOnCol: str = 'data', resultInCol: Optional[str] = None, params: Optional[dict] = None, inPlace: dict = False)[source]
getFromFiles(input: list[str])[source]

Creates a Frame object from json files containing fhir resources

getReferences(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, params: Optional[dict] = None, ignoreFrame: bool = False, raw: bool = False)[source]
getResources(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, resourceType: Optional[str] = None, ignoreFrame: bool = False, raw: bool = False)[source]
getURLBytes(input: Optional[list[str]] = None, operateOnCol: str = 'data', resultInCol: Optional[str] = None, params: dict = {})[source]
searchResources(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, resourceType: Optional[str] = None, ignoreFrame: bool = True, raw: bool = False)[source]

fhirpack.extraction.base_test module

fhirpack.extraction.base_test.y(request)[source]

fhirpack.extraction.condition module

class fhirpack.extraction.condition.ExtractorConditionMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.condition'
getConditions(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.condition_test module

fhirpack.extraction.diagnosticreport module

class fhirpack.extraction.diagnosticreport.ExtractorDiagnosticReportMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.diagnosticreport'
getDiagnosticReports(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.endpoint module

class fhirpack.extraction.endpoint.ExtractorEndpointMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.endpoint'
getEndpoints(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.episodeofcare module

class fhirpack.extraction.episodeofcare.ExtractorEpisodeOfCareMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.episodeofcare'
getEpisodesOfCare(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.familymemberhistory module

class fhirpack.extraction.familymemberhistory.ExtractorFamilyMemberHistoryMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.familymemberhistory'
getFamilyMemberHistories(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.imagingstudy module

class fhirpack.extraction.imagingstudy.ExtractorImagingStudyMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.imagingstudy'
getImagingStudies(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.list module

class fhirpack.extraction.list.ExtractorListMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.list'
getLists(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.medicationadministration module

class fhirpack.extraction.medicationadministration.ExtractorMedicationAdministrationMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.medicationadministration'
getMedicationAdministrations(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.medicationrequest module

class fhirpack.extraction.medicationrequest.ExtractorMedicationRequestMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.medicationrequest'
getMedicationRequests(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.observation module

class fhirpack.extraction.observation.ExtractorObservationMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.observation'
getObservations(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.patient module

class fhirpack.extraction.patient.ExtractorPatientMixin[source]

Bases: BaseExtractorMixin

__doc__ = None
__module__ = 'fhirpack.extraction.patient'
getLinkedPatients(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]
getPatients(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference]]] = None, searchParams: Optional[dict] = None, includeLinkedPatients=False, params: Optional[dict] = None, ignoreFrame: bool = False)[source]
getRootPatients(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, searchParams: Optional[dict] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

fhirpack.extraction.patient_test module

fhirpack.extraction.sample module

class fhirpack.extraction.sample.BaseExtractorMixin[source]

Bases: object

__dict__ = mappingproxy({'__module__': 'fhirpack.extraction.sample', 'getSampleExtractionMethod': <function BaseExtractorMixin.getSampleExtractionMethod>, '__dict__': <attribute '__dict__' of 'BaseExtractorMixin' objects>, '__weakref__': <attribute '__weakref__' of 'BaseExtractorMixin' objects>, '__doc__': None, '__annotations__': {}})
__doc__ = None
__module__ = 'fhirpack.extraction.sample'
__weakref__

list of weak references to the object (if defined)

getSampleExtractionMethod(input: Optional[Union[list[str], list[fhirpy.lib.SyncFHIRReference], list[fhirpy.lib.SyncFHIRResource]]] = None, params: Optional[dict] = None, ignoreFrame: bool = False)[source]

Module contents

class fhirpack.extraction.ExtractorMixin[source]

Bases: ExtractorObservationMixin, ExtractorPatientMixin, ExtractorConditionMixin, ExtractorDiagnosticReportMixin, ExtractorEpisodeOfCareMixin, ExtractorFamilyMemberHistoryMixin, ExtractorMedicationRequestMixin, ExtractorMedicationAdministrationMixin, ExtractorListMixin, ExtractorImagingStudyMixin, ExtractorEndpointMixin

__doc__ = None
__module__ = 'fhirpack.extraction'