from flask.views import MethodView
from flaskapp.extensions.api import api
from flaskapp.docs.views.blueprint import docs
from flask import send_file
print('Start')
class DocsAPI(MethodView):
def get(self, _version, path):
if '.png' in path:
send_file(f'docs/views/docs/{path}', mimetype='image/png')
return send_file(f'docs/views/docs/{path}')
docs_view = DocsAPI.as_view('docs')
api.add_url_rule(
docs.url_prefix + '/<path:path>',
view_func=docs_view,
methods=['GET', 'POST', 'DELETE'],
)
query = f"SELECT t.* FROM {table_name} t"
column_names = []
with conn:
try:
cursor = conn.cursor()
cursor.execute(query)
cursor.fetchall()
column_names = [column[0] for column in cursor.description]
except pyodbc.ProgrammingError as e:
print(e)
print('Already exists??')
db_schema[table_name] = column_names
return jsonify(db_schema)
schema_view = SchemaAPI.as_view('schema')
api.add_url_rule(
schema.url_prefix,
view_func=schema_view,
methods=['GET'],
)
api.add_url_rule(
schema.url_prefix + '/',
view_func=schema_view,
methods=['GET'],
)
[s == 'POST-PROCESSED' for s in tf_status_mappings]):
files = list_files(user_id, f'{folder}/post-processed', app)
files_parts = [file.split('/') for file in files]
result_urls = ['/'.join(parts[-2:]) for parts in files_parts]
return jsonify(
responses.response('POST-PROCESSED', 'Prediction finished.',
result_urls))
if tf_status_mappings and any(
[s == 'POST-PROCESSED' for s in tf_status_mappings]):
return jsonify(
responses.response(statuses,
'Prediction post processing in progress.'))
if tf_status_mappings and any(
[s == 'INGESTED' for s in tf_status_mappings]):
return jsonify(
responses.response(statuses, 'Pre processing in progress.'))
return jsonify(
responses.response(
statuses,
'Prediction schedule, please check again in a while'))
predict_view = PredictAPI.as_view('prediction')
api.add_url_rule(prediction.url_prefix + '/<string:folder>',
view_func=predict_view,
methods=['GET'])
from flask.views import MethodView
from flask import jsonify
from flask import request
from flaskapp.extensions.api import api
from flaskapp.field.views.blueprint import field
from logstash.config_generator.fields_generator import process_resource
class FHIRFieldAPI(MethodView):
def get(self, _version, resource):
return jsonify(process_resource(resource))
field_view = FHIRFieldAPI.as_view('field')
api.add_url_rule(
field.url_prefix + '/<resource>',
view_func=field_view,
methods=['GET'],
)
logstash_pipeline = self._render_pipeline(configuration)
with open(f'logstash/pipeline/pipeline.{resource.lower()}.conf',
'w+') as f:
f.write(logstash_pipeline)
# TODO: validation
return jsonify(logstash_pipeline)
def delete(self, _version, resource):
try:
os.remove(f'logstash/pipeline/pipeline.{resource.lower()}.conf')
except Exception as e:
pass
return jsonify()
logstashconfig_view = FHIRLogstashConfigAPI.as_view('logstashconfig')
api.add_url_rule(logstashconfig.url_prefix + '/',
view_func=logstashconfig_view,
methods=['GET', 'POST', 'DELETE'],
defaults={'resource': None})
api.add_url_rule(
logstashconfig.url_prefix + '/<resource>',
view_func=logstashconfig_view,
methods=['GET', 'POST', 'DELETE'],
)
user_id = request.args.get('user')
responses = ResponseGenerator(
app_name, user_id, "", SERVICE_NAME, INSTANCE_ID
)
if not user_id:
return jsonify(responses.missing_parameter('user'))
if not app_name:
return jsonify(responses.missing_parameter('app'))
return jsonify(delete_folder(user_id, app_name, folder))
files_view = FilesAPI.as_view('files')
api.add_url_rule(
files.url_prefix,
defaults={
'folder': None,
},
view_func=files_view,
methods=['GET']
)
api.add_url_rule(
files.url_prefix + '/<string:folder>',
view_func=files_view,
methods=['GET', 'POST', 'DELETE']
)
def _are_data_ingested(self, app_name, user_id, ingestion_id,
ingestion_time, patient_id):
data = {}
ingested_files = list_files(
user_id, f'{patient_id}/{ingestion_time}/ingested/', app_name)
for pfile in ingested_files:
data[patient_id] = json.loads(get_file(pfile, app_name))
return {
'id': ingestion_id,
'user': user_id,
'data': data,
# 'status': current_statuses
}
ingestion_view = FHIRPredictAPI.as_view('ingestion')
api.add_url_rule(
ingestion.url_prefix,
view_func=ingestion_view,
methods=['POST'],
)
api.add_url_rule(
ingestion.url_prefix + '/',
view_func=ingestion_view,
methods=['POST'],
)