diff options
Diffstat (limited to 'wqflask/base/data_set/utils.py')
| -rw-r--r-- | wqflask/base/data_set/utils.py | 11 |
1 files changed, 6 insertions, 5 deletions
diff --git a/wqflask/base/data_set/utils.py b/wqflask/base/data_set/utils.py index 703fee04..bb17a6c7 100644 --- a/wqflask/base/data_set/utils.py +++ b/wqflask/base/data_set/utils.py @@ -6,9 +6,10 @@ import json import hashlib from typing import List +from flask import current_app as app -from utility.tools import SQL_URI -from base.webqtlConfig import TMPDIR + +from utility.tools import get_setting from wqflask.database import parse_db_url, database_connection def geno_mrna_confidentiality(ob): @@ -27,7 +28,7 @@ def query_table_timestamp(dataset_type: str): # computation data and actions with database_connection() as conn, conn.cursor() as cursor: - fetch_db_name = parse_db_url(SQL_URI) + fetch_db_name = parse_db_url(get_setting(app, "SQL_URI")) cursor.execute( "SELECT UPDATE_TIME FROM " "information_schema.tables " @@ -57,7 +58,7 @@ def cache_dataset_results(dataset_name: str, dataset_type: str, samplelist: List samplelist_as_str = ",".join(samplelist) file_name = generate_hash_file(dataset_name, dataset_type, table_timestamp, samplelist_as_str) - file_path = os.path.join(TMPDIR, f"{file_name}.json") + file_path = os.path.join(get_setting(app, "TMPDIR"), f"{file_name}.json") with open(file_path, "w") as file_handler: json.dump(query_results, file_handler) @@ -70,7 +71,7 @@ def fetch_cached_results(dataset_name: str, dataset_type: str, samplelist: List) samplelist_as_str = ",".join(samplelist) file_name = generate_hash_file(dataset_name, dataset_type, table_timestamp, samplelist_as_str) - file_path = os.path.join(TMPDIR, f"{file_name}.json") + file_path = os.path.join(get_setting(app, "TMPDIR"), f"{file_name}.json") try: with open(file_path, "r") as file_handler: |