def setup_method(self):
self.configuration = nlpsandbox.Configuration()
self.api = nlpsandbox.ApiClient()
self.mock_api = Mock()
self.host = "0.0.0.0"
self.config = patch.object(utils,
"get_api_configuration",
return_value=self.configuration)
self.api_client = patch.object(nlpsandbox, "ApiClient")
self.example_note = {
"identifier": "note-1",
"type": "loinc:LP29684-5",
"patientId": "507f1f77bcf86cd799439011",
"text": "On 12/26/2020, Ms. Chloe Price met with Dr. Prescott."
}
self.example_request = {
"note": {
"identifier": "note-1",
"type": "loinc:LP29684-5",
"patient_id": "507f1f77bcf86cd799439011",
"text": "On 12/26/2020, Ms. Chloe Price met with Dr. Prescott."
}
}
self.date_response = TextDateAnnotationResponse(text_date_annotations=[
TextDateAnnotation(
start=10, length=10, text="foobar", confidence=95.5)
])
def test_get_api_configuration():
"""Test getting API configuration"""
configuration = nlpsandbox.Configuration()
with patch.object(nlpsandbox, "Configuration",
return_value=configuration),\
patch.object(utils, "check_url"):
config = utils.get_api_configuration(host="0.0.0.0")
assert config == configuration
def setup_method(self):
self.configuration = nlpsandbox.Configuration()
self.api = nlpsandbox.ApiClient()
self.mock_api = Mock()
self.host = "0.0.0.0"
self.config = patch.object(utils,
"get_api_configuration",
return_value=self.configuration)
self.api_client = patch.object(nlpsandbox, "ApiClient")
self.dataset_id = "awesome-dataset"
self.annotation_store_id = "annotation-store"
self.annotation_id = "awesome-annotation"
self.fhir_store_id = "fhir-store"
def get_api_configuration(host: str):
"""Get API configuration
Args:
host: Tool IP
Returns:
API configuration
Examples:
>>> get_api_configuration(host="http://0.0.0.0:8080/api/v1")
"""
# Check if URL exists
check_url(url=os.path.join(host, "ui"))
configuration = nlpsandbox.Configuration(host=host)
return configuration
https://github.com/nlpsandbox/data-node
- python push_dataset.py
"""
import json
import nlpsandbox
import nlpsandbox.apis
import nlpsandbox.models
from nlpsandbox.rest import ApiException
import nlpsandboxclient.utils
# Defining the host is optional and defaults to http://example.com/api/v1
# See configuration.py for a list of all supported configuration parameters.
host = "http://localhost:8080/api/v1"
configuration = nlpsandbox.Configuration(host=host)
dataset_id = 'test-dataset'
fhir_store_id = 'evaluation'
annotation_store_id = 'goldstandard'
json_filename = "example-patient-bundles.json"
with nlpsandbox.ApiClient(configuration) as api_client:
dataset_api = nlpsandbox.apis.DatasetApi(api_client)
fhir_store_api = nlpsandbox.apis.FhirStoreApi(api_client)
annotation_store_api = nlpsandbox.apis.AnnotationStoreApi(api_client)
patient_api = nlpsandbox.apis.PatientApi(api_client)
note_api = nlpsandbox.apis.NoteApi(api_client)
annotation_api = nlpsandbox.apis.AnnotationApi(api_client)
# The example is always deleted