From f920f9ad6d74648a0f572f3e937cfe1ea6578b3f Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Wed, 12 Jul 2023 13:50:34 +0300
Subject: Bug: Retrieve configs from app, not environment

Retrieve the configuration values from the application object, not from the
environment. We are assured of having the configuration values set in the
application - we do not have that assurance for the environment.
---
 gn3/db/datasets.py | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

(limited to 'gn3')

diff --git a/gn3/db/datasets.py b/gn3/db/datasets.py
index 8839f2e..28fe0fe 100644
--- a/gn3/db/datasets.py
+++ b/gn3/db/datasets.py
@@ -4,6 +4,8 @@ This module contains functions relating to specific trait dataset manipulation
 import os
 from typing import Any
 
+from flask import current_app as app
+
 def retrieve_sample_list(group: str):
     """
     Get the sample list for a group (a category that datasets belong to)
@@ -14,7 +16,7 @@ def retrieve_sample_list(group: str):
 
     samplelist = []
     genofile_path = (
-        f'{os.environ.get("GENENETWORK_FILES", "/home/gn2/production/genotype_files/")}'
+        f'{app.config.get("GENENETWORK_FILES", "/home/gn2/production/genotype_files/")}'
         f'/genotype/{group}.geno'
     )
     if os.path.isfile(genofile_path):
-- 
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