def test_parsing_basic_meta_value():
input_dict = {
"tag": [{
"system": "http://lifeomic.com/fhir/dataset",
"code": "dataset-code",
}]
}
assert generic_codeable_to_dict(input_dict) == {
"tag_system__lifeomic.com/fhir/dataset__code": "dataset-code"
}
def test_parsing_system_value():
assert generic_codeable_to_dict(
{
"system": "http://lifeomic.com/fhir/consent-form-id",
"value": "default-project-consent-form",
},
prefix="extension",
) == {
"extension_system__lifeomic.com/fhir/consent-form-id__value":
"default-project-consent-form"
}
def expand_address_attr(key, attr_value):
if type(attr_value) is dict:
return generic_codeable_to_dict(attr_value, key)
if type(attr_value) is list:
return concat_dicts([
expand_address_attr(f"{key}_{index}", value)
for index, value in enumerate(attr_value)
])
return {key: attr_value}
def test_parsing_extension_without_coding():
input_dict = [{
"url": "http://hl7.org/fhir/StructureDefinition/us-core-race",
"valueCodeableConcept": {
"text": "American Indian or Alaska Native"
},
}]
assert generic_codeable_to_dict(input_dict) == {
"url__hl7.org/fhir/StructureDefinition/us-core-race__valueCodeableConcept_text":
"American Indian or Alaska Native"
}
def test_parsing_anonymous_identifier():
input_dict = [{
"type": {
"coding": [{
"code": "ANON",
"system": "http://hl7.org/fhir/v2/0203"
}]
},
"value": "LO-AR-A251",
}]
# NOTE: There's not much we can do to show the underlying structure since
# type is really being applied to the value. So, when in conflict, we'll opt
# to make more readable columns.
assert generic_codeable_to_dict(input_dict) == {
"type_coding_system__hl7.org/fhir/v2/0203__code": "ANON",
"type_coding_system__hl7.org/fhir/v2/0203__value": "LO-AR-A251",
}
def test_parsing_extension_with_race():
input_dict = [
{
"url": "http://hl7.org/fhir/StructureDefinition/us-core-race",
"valueCodeableConcept": {
"text":
"race",
"coding": [{
"code": "2106-3",
"system": "http://hl7.org/fhir/v3/Race",
"display": "white",
}],
},
},
{
"url": "http://hl7.org/fhir/StructureDefinition/us-core-ethnicity",
"valueCodeableConcept": {
"text":
"ethnicity",
"coding": [{
"code": "2186-5",
"system": "http://hl7.org/fhir/v3/Ethnicity",
"display": "not hispanic or latino",
}],
},
},
]
assert generic_codeable_to_dict(input_dict) == {
"url__hl7.org/fhir/StructureDefinition/us-core-race__valueCodeableConcept_text":
"race",
"url__hl7.org/fhir/StructureDefinition/us-core-race__valueCodeableConcept_coding_system__hl7.org/fhir/v3/Race__code":
"2106-3",
"url__hl7.org/fhir/StructureDefinition/us-core-race__valueCodeableConcept_coding_system__hl7.org/fhir/v3/Race__display":
"white",
"url__hl7.org/fhir/StructureDefinition/us-core-ethnicity__valueCodeableConcept_text":
"ethnicity",
"url__hl7.org/fhir/StructureDefinition/us-core-ethnicity__valueCodeableConcept_coding_system__hl7.org/fhir/v3/Ethnicity__code":
"2186-5",
"url__hl7.org/fhir/StructureDefinition/us-core-ethnicity__valueCodeableConcept_coding_system__hl7.org/fhir/v3/Ethnicity__display":
"not hispanic or latino",
}
def test_parsing_lat_long_extension():
expected = {
"url__hl7.org/fhir/StructureDefinition/geolocation__extension_url__latitude__valueDecimal":
-71.058706,
"url__hl7.org/fhir/StructureDefinition/geolocation__extension_url__longitude__valueDecimal":
42.42938,
}
assert (generic_codeable_to_dict({
"url":
"http://hl7.org/fhir/StructureDefinition/geolocation",
"extension": [
{
"url": "latitude",
"valueDecimal": -71.058706
},
{
"url": "longitude",
"valueDecimal": 42.42938
},
],
}) == expected)
def test_parsing_simple_meta_value():
input_dict = {
"tag": [
{
"system": "http://lifeomic.com/fhir/group",
"code": "group-code-id",
},
{
"system": "http://lifeomic.com/fhir/dataset",
"code": "dataset-code-id",
},
{
"system": "http://lifeomic.com/fhir/dataset",
"code": "dataset-second-code-id",
},
{
"system": "http://lifeomic.com/fhir/source",
"code": "LifeOmic Consent",
},
{
"system": "http://lifeomic.com/fhir/questionnaire-type",
"code": "consent-form",
},
],
"lastUpdated":
"2019-08-13T17:47:18.957Z",
}
assert generic_codeable_to_dict(input_dict) == {
"tag_lastUpdated": "2019-08-13T17:47:18.957Z",
"tag_system__lifeomic.com/fhir/group__code": "group-code-id",
"tag_system__lifeomic.com/fhir/dataset__code": "dataset-code-id",
"tag_system__lifeomic.com/fhir/dataset__code_1":
"dataset-second-code-id",
"tag_system__lifeomic.com/fhir/source__code": "LifeOmic Consent",
"tag_system__lifeomic.com/fhir/questionnaire-type__code":
"consent-form",
}