File size: 6,593 Bytes
cb505ff | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 | import os
import sqlite3
import tempfile
import pytest
from src.tools.fhir_memory import (
save_patient,
create_session,
save_observation,
get_observations_by_patient,
get_patient_summary_fhir,
save_chat_as_fhir,
get_chat_history_by_session,
get_sessions_by_patient,
get_medications_by_patient,
save_medication,
ingest_fhir_bundle
)
import src.tools.dietary_tools as dietary_tools
from src.tools.web_tools import search_web
def test_fhir_save_patient(clean_db):
patient_id = "test-p1"
name = "Alice Smith"
res = save_patient.invoke({"patient_id": patient_id, "name": name})
assert "Successfully saved" in res
# Check mock DB state
db_patient = clean_db.db["patients"][patient_id]
assert db_patient["id"] == patient_id
assert db_patient["resource"]["name"][0]["text"] == name
def test_fhir_session_creation(clean_db):
patient_id = "test-p2"
# Ensure patient exists
save_patient.invoke({"patient_id": patient_id, "name": "Bob"})
session_id = create_session.invoke({"patient_id": patient_id, "title": "Diet Consult"})
assert session_id is not None
sessions = get_sessions_by_patient.invoke({"patient_id": patient_id})
assert len(sessions) == 1
assert sessions[0]["id"] == session_id
assert sessions[0]["title"] == "Diet Consult"
def test_fhir_observation_saving(clean_db):
patient_id = "test-p3"
# Save observation
res = save_observation.invoke({
"patient_id": patient_id,
"value": 95.5,
"unit": "mg/dL",
"display": "Glucose",
"loinc_code": "2339-0"
})
assert "Successfully saved" in res
# Retrieve and check
obs = get_observations_by_patient.invoke({"patient_id": patient_id})
assert isinstance(obs, list)
assert len(obs) == 1
assert obs[0]["valueQuantity"]["value"] == 95.5
assert obs[0]["subject"]["reference"] == f"Patient/{patient_id}"
def test_fhir_chat_persistence(clean_db):
patient_id = "test-p4"
session_id = "session-1"
messages = [
{"role": "user", "content": "How are you?"},
{"role": "assistant", "content": "I am a chatbot."}
]
res = save_chat_as_fhir.invoke({
"patient_id": patient_id,
"messages": messages,
"session_id": session_id
})
assert "Successfully saved" in res
history = get_chat_history_by_session.invoke({"session_id": session_id})
assert len(history) == 1
assert history[0]["resourceType"] == "Communication"
assert "user: How are you?" in history[0]["payload"][0]["contentString"]
def test_fhir_medications(clean_db):
patient_id = "test-p5"
res = save_medication.invoke({
"patient_id": patient_id,
"medication_name": "Metformin",
"dosage": "500mg",
"frequency": "twice daily"
})
assert "Successfully saved" in res
meds = get_medications_by_patient.invoke({"patient_id": patient_id})
assert len(meds) == 1
assert meds[0]["resourceType"] == "MedicationRequest"
assert meds[0]["medication"]["coding"][0]["display"] == "Metformin"
def test_ingest_fhir_bundle(clean_db):
bundle = {
"resourceType": "Bundle",
"entry": [
{
"resource": {
"resourceType": "Patient",
"id": "bundle-p1",
"name": [{"text": "Bundle Patient"}]
}
},
{
"resource": {
"resourceType": "Observation",
"id": "bundle-o1",
"subject": {"reference": "Patient/bundle-p1"},
"valueQuantity": {"value": 120},
"code": {"coding": [{"display": "Systolic BP"}]}
}
}
]
}
res = ingest_fhir_bundle.invoke({"bundle": bundle})
assert "Successfully ingested 2 resources" in res
patient = clean_db.db["patients"].get("bundle-p1")
assert patient["resource"]["name"][0]["text"] == "Bundle Patient"
def test_dietary_search_guidelines():
res = dietary_tools.search_guidelines.invoke({"query": "diabetes"})
assert "guidelines" in res
assert "Mock Vector DB Guideline" in res
def test_dietary_nutritional_database():
# Test case when database does not exist
old_path = dietary_tools.DB_PATH
dietary_tools.DB_PATH = "nonexistent_db_file.db"
res_none = dietary_tools.get_nutritional_data.invoke({"food_name": "Apple"})
assert "not found" in res_none
# Test case when database exists
# Create a temporary SQLite database
temp_db_fd, temp_db_path = tempfile.mkstemp()
try:
conn = sqlite3.connect(temp_db_path)
cursor = conn.cursor()
cursor.execute("""
CREATE TABLE nutritional_data (
food_name TEXT,
calories INTEGER,
protein REAL,
carbs REAL,
fat REAL,
fiber REAL,
vitamins TEXT
)
""")
cursor.execute("""
INSERT INTO nutritional_data VALUES (
'Apple', 52, 0.3, 14.0, 0.2, 2.4, 'Vitamin C'
)
""")
conn.commit()
conn.close()
# Update DB_PATH to point to the temporary database
dietary_tools.DB_PATH = temp_db_path
# Test finding food item
res_found = dietary_tools.get_nutritional_data.invoke({"food_name": "Apple"})
assert "Nutritional data found" in res_found
assert "Apple: 52 kcal" in res_found
assert "Protein: 0.3g" in res_found
# Test finding non-existent food item
res_missing = dietary_tools.get_nutritional_data.invoke({"food_name": "Banana"})
assert "No nutritional data found for 'Banana'" in res_missing
finally:
os.close(temp_db_fd)
os.remove(temp_db_path)
# Restore DB_PATH
dietary_tools.DB_PATH = old_path
def test_web_search():
res = search_web("diabetes symptoms")
assert "Diabetes symptoms" in res
assert "Common symptoms of diabetes." in res
assert "https://example.com/diabetes" in res
def test_fhir_tools_reject_missing_required_identity(clean_db):
with pytest.raises(Exception):
get_observations_by_patient.invoke({})
def test_fhir_bundle_rejects_missing_entries(clean_db):
result = ingest_fhir_bundle.invoke({"bundle": {"resourceType": "Bundle"}})
assert result == "Successfully ingested 0 resources from FHIR Bundle."
|