def test_primitives(self):
"""
FHIR periodically makes changes to the fhir data types. This test determines whether there are any FHIR
primitive types that aren't anchored in the XML space
"""
g = FHIRGraph()
tests = [
self.is_xsd_primitive(p, g)
for p in g.subjects(RDFS.subClassOf, FHIR.Primitive)
]
self.assertTrue(all(tests))
def setUpClass(cls):
from tests.utils.base_test_case import FHIRGraph
cls.fhir_ontology = FHIRGraph()
cls.test_input_directory = os.path.join(
os.path.split(os.path.abspath(__file__))[0], '..', 'data')
cls.test_output_directory = os.path.join(
os.path.split(os.path.abspath(__file__))[0], 'data_out')
def test_decimal(self):
test_json = loads(json_data)
from fhirtordf.loaders.fhirresourceloader import FHIRResource
test_rdf = FHIRResource(FHIRGraph(), None, "http://hl7.org/fhir", test_json, add_ontology_header=False)
g = test_rdf.graph
self.assertEqual({URIRef('http://hl7.org/fhir/Bundle/bundle-example'),
URIRef('https://example.com/base/MedicationRequest/3123')},
set(s for s in g.subjects() if isinstance(s, URIRef)))
def test_reference(self):
test_json = loads(data)
from fhirtordf.loaders.fhirresourceloader import FHIRResource
test_rdf = FHIRResource(FHIRGraph(), None, "http://hl7.org/fhir", test_json)
g = test_rdf.graph
expected_graph = Graph()
diffs = rdf_compare(expected_graph, test_rdf.graph, ignore_owl_version=True, ignore_type_arcs=True)
self.assertEqual("", diffs)
def test_reference(self):
test_json = loads(data)
from fhirtordf.loaders.fhirresourceloader import FHIRResource
test_rdf = FHIRResource(FHIRGraph(), None, "http://hl7.org/fhir",
test_json)
g = test_rdf.graph
subj = URIRef("http://hl7.org/fhir/EligibilityResponse/E2500")
self.assertEqual(
"http://www.BenefitsInc.com/fhir/eligibility/225476332402",
str(
g.value(g.value(subj, FHIR.EligibilityResponse.request),
FHIR.link)))
def test_decimal(self):
test_json = loads(json_data)
from fhirtordf.loaders.fhirresourceloader import FHIRResource
test_rdf = FHIRResource(FHIRGraph(), None, "http://hl7.org/fhir",
test_json)
g = test_rdf.graph
# rdflib supports decimal precision if you create the data as a string.
self.assertNotEqual(Literal("2.00", datatype=XSD.decimal),
Literal("2.0", datatype=XSD.decimal))
self.assertEqual(Literal(2.00), Literal(2.0))
# FHIR requires that *all* decimals use the first form. While the diopter example above
# would work, issues arise in situations where numbers really ARE decimal...
self.assertEqual(
Literal("2.00", datatype=XSD.decimal),
g.value(
g.value(
g.value(
URIRef("http://hl7.org/fhir/VisionPrescription/33123"),
FHIR.VisionPrescription.dispense),
FHIR.VisionPrescription.dispense.add), FHIR.value))
def setUpClass(cls):
from tests.utils.base_test_case import FHIRGraph
cls.fhir_ontology = FHIRGraph()
# Copyright (c) 2017, Mayo Clinic # All rights reserved. # # Redistribution and use in source and binary forms, with or without modification, # are permitted provided that the following conditions are met: # # Redistributions of source code must retain the above copyright notice, this # list of conditions and the following disclaimer. # # Redistributions in binary form must reproduce the above copyright notice, # this list of conditions and the following disclaimer in the documentation # and/or other materials provided with the distribution. # # Neither the name of the Mayo Clinic nor the names of its contributors # may be used to endorse or promote products derived from this software # without specific prior written permission. # # THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND # ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED # WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. # IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, # INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, # BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, # DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF # LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE # OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED # OF THE POSSIBILITY OF SUCH DAMAGE. from tests.utils.base_test_case import FHIRGraph shared_graph = FHIRGraph()
def test_fhir_graph(self):
from tests.utils.base_test_case import FHIRGraph
from fhirtordf.rdfsupport.namespaces import FHIR, W5
g = FHIRGraph()
self.assertTrue(FHIR.Account in g.subjects())
def setUpClass(cls):
cls.g = FHIRGraph()
cls.g.parse(bmi_graph, format="turtle")
