def process_request(cls, params_dict):
probes_file = params_dict[ParameterFactory.file("Probes file.")][0]
json_response = {
FILENAME: probes_file.filename,
ERROR: "",
}
http_status_code = 200
file_uuid = str(uuid4())
path = os.path.join(PROBES_UPLOAD_FOLDER, file_uuid)
existing_filenames = cls._DB_CONNECTOR.distinct(
PROBES_COLLECTION, FILENAME)
if os.path.exists(path) or probes_file.filename in existing_filenames:
http_status_code = 403
elif validate_fasta(probes_file) == False:
http_status_code = 415
else:
try:
probes_file.save(path)
probes_file.close()
json_response[URL] = "http://%s/probes/%s" % (HOSTNAME,
file_uuid)
json_response[FILEPATH] = path
json_response[UUID] = file_uuid
json_response[DATESTAMP] = datetime.today().strftime(
TIME_FORMAT)
json_response[TYPE] = "probes"
if "." in probes_file.filename:
json_response[FORMAT] = probes_file.filename.split(".")[-1]
else:
json_response[FORMAT] = "Unknown"
cls._DB_CONNECTOR.insert(PROBES_COLLECTION, [json_response])
del json_response[ID]
except:
json_response[ERROR] = str(sys.exc_info()[1])
http_status_code = 500
return make_response(jsonify(json_response), http_status_code)
def process_request(cls, params_dict):
probes_file = params_dict[ParameterFactory.file("Probes file.")][0]
json_response = {
FILENAME: probes_file.filename,
ERROR: "",
}
http_status_code = 200
file_uuid = str(uuid4())
path = os.path.join(PROBES_UPLOAD_FOLDER, file_uuid)
existing_filenames = cls._DB_CONNECTOR.distinct(PROBES_COLLECTION, FILENAME)
if os.path.exists(path) or probes_file.filename in existing_filenames:
http_status_code = 403
elif validate_fasta(probes_file) == False:
http_status_code = 415
else:
try:
probes_file.save(path)
probes_file.close()
json_response[URL] = "http://%s/probes/%s" % (HOSTNAME, file_uuid)
json_response[FILEPATH] = path
json_response[UUID] = file_uuid
json_response[DATESTAMP] = datetime.today().strftime(TIME_FORMAT)
json_response[TYPE] = "probes"
if "." in probes_file.filename:
json_response[FORMAT] = probes_file.filename.split(".")[-1]
else:
json_response[FORMAT] = "Unknown"
cls._DB_CONNECTOR.insert(PROBES_COLLECTION, [json_response])
del json_response[ID]
except:
json_response[ERROR] = str(sys.exc_info()[1])
http_status_code = 500
return make_response(jsonify(json_response), http_status_code)
def parameters(cls):
parameters = [ParameterFactory.file("Probes file.")]
return parameters
def parameters(cls):
parameters = [
ParameterFactory.file("Probes file.")
]
return parameters
def parameters(cls):
parameters = [
ParameterFactory.file("Targets FASTA file.")
]
return parameters