def query_and_fetchall(sql_query: str, *args) -> List[Dict]:
"""
takes a sql query string and returns the all rows of the results of the query
Args:
sql_query: the SQL query
Returns:
List[Dict]: All rows from the query
"""
try:
pg_conn, pg_cur = get_pg_connection()
pg_cur.execute(sql_query, args)
result = pg_cur.fetchall()
pg_conn.commit()
pg_cur.close()
pg_conn.close()
return result
except Exception as e:
traceback.print_exc()
logger_service.log_error('DB ERROR', traceback.format_exc())
raise e
def get_pg_connection() -> (Dict, Dict):
"""
Gets pg connection and cursor from postgres
Returns:
(Dict, Dict): the pg connection and cursor
"""
try:
postgres_url = os.getenv('POSTGRES_URL')
if(postgres_url):
result = urlparse.urlparse(postgres_url)
username = result.username
password = result.password
database = result.path[1:]
hostname = result.hostname
port = result.port
pg_conn = psycopg2.connect(
database = database,
user = username,
password = password,
host = hostname,
port = port
)
else:
pg_conn = connect(host='postgres-db', user='******', password='******', dbname='ai')
pg_cur = pg_conn.cursor(cursor_factory=DictCursor)
return pg_conn, pg_cur
except Exception as e:
traceback.print_exc()
logger_service.log_error('DB ERROR', traceback.format_exc())
raise e
def fail_dicom_eval(eval_id):
traceback.print_exc()
error_message = f'evaluation for study {eval_id} failed'
logger_service.log_error(error_message, traceback.format_exc())
# update eval status to FAILED
eval_db.fail_eval(eval_id)
messaging_service.send_notification(error_message, 'eval_failed')
def fail_classification(orthanc_ids):
# catch errors and print output
print('classification of study', orthanc_ids, 'failed')
traceback.print_exc()
logger_service.log_error(f'classfying {orthanc_ids} failed', traceback.format_exc())
# remove studies from the db that failed on classfication
for orthanc_id in orthanc_ids:
study_db.remove_study_by_id(orthanc_id)
def fail_evals(model_id, eval_ids):
traceback.print_exc()
error_message = f'evaluation using model {model_id} failed'
logger_service.log_error(error_message, traceback.format_exc())
for eval_id in eval_ids:
eval_db.fail_eval(eval_id)
messaging_service.send_notification(error_message, 'eval_failed')
def fail_experiment(experiment):
"""
"""
messaging_service.send_notification(
f'Failed experiment {experiment["name"]}', 'experiment_failed')
experiment_db.set_experiment_failed(experiment['id'])
traceback.print_exc()
experiment_id = experiment['id']
logger_service.log_error(f'experiment {experiment_id} failed',
traceback.format_exc())
def run_jobs():
"""
checks the database for current eval jobs and evaluates studies
"""
# Get currently running jobs
print('runnning jobs')
jobs = eval_service.get_eval_jobs()
for job in jobs:
try:
evaluate_studies.delay(job['modelId'], 1)
except Exception as e:
logger_service.log_error(f'{job.id} failed', traceback.format_exc())
traceback.print_exc()
def query(sql_query: str, *args):
"""
takes a sql query string and returns the all rows of the results of the query
Args:
sql_query: the SQL query
"""
try:
pg_conn, pg_cur = get_pg_connection()
pg_cur.execute(sql_query, args)
pg_conn.commit()
pg_cur.close()
pg_conn.close()
except Exception as e:
traceback.print_exc()
logger_service.log_error('DB ERROR', traceback.format_exc())
raise e
def fail_model(model_id):
traceback.print_exc()
error_message = f'evaluation using model {model_id} failed'
logger_service.log_error(error_message, traceback.format_exc())
messaging_service.send_notification(error_message, 'eval_failed')