From e9591750cf97f2cec2c59ec855ed6d4afdd36c15 Mon Sep 17 00:00:00 2001 From: Emilio Righi Date: Wed, 2 Oct 2024 16:28:05 +0200 Subject: [PATCH] update annotations path --- server/rest/annotation/annotations_service.py | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/server/rest/annotation/annotations_service.py b/server/rest/annotation/annotations_service.py index dcd46fe..e2299d2 100644 --- a/server/rest/annotation/annotations_service.py +++ b/server/rest/annotation/annotations_service.py @@ -3,9 +3,9 @@ from errors import NotFound from helpers import data as data_helper, organism as organism_helper from mongoengine.errors import ValidationError +import os - -ANNOTATIONS_DATA_PATH = "/server/annotations_data" +ANNOTATIONS_DATA_PATH = os.getenv('ANNOTATIONS_PATH') FIELDS_TO_EXCLUDE = ['id'] DATA_REQUIRED_FIELDS = ['name', 'assembly_accession'] URL_FIELDS = ['gff_gz_location', 'tab_index_location'] @@ -65,7 +65,7 @@ def extract_metadata(data): valid_data['metadata'] = metadata_dict return valid_data -def save_files(files, valid_data, assembly_accession, annotation_name, taxid, request): +def save_files(files, valid_data, assembly_accession, annotation_name, request): for k in FILES_REQUIRED_FIELDS: if not files.get(k): return f'{k} field is required', 400 @@ -121,7 +121,7 @@ def create_annotation(request): # Handle file saving if files: - response = save_files(files, valid_data, assembly_accession, annotation_name, taxid, request) + response = save_files(files, valid_data, assembly_accession, annotation_name, request) if response: return response else: