Merge branch 'testing' into bug/fix_rqtl_covariates

1 files changed, 30 insertions, 23 deletions

diff --git a/wqflask/maintenance/set_resource_defaults.py b/wqflask/maintenance/set_resource_defaults.py
index 4177c124..0f472494 100644
--- a/wqflask/maintenance/set_resource_defaults.py
+++ b/wqflask/maintenance/set_resource_defaults.py
@@ -37,20 +37,22 @@ import urllib.parse
 from utility.logger import getLogger
 logger = getLogger(__name__)
 
+
 def parse_db_uri():
     """Converts a database URI to the db name, host name, user name, and password"""
 
     parsed_uri = urllib.parse.urlparse(SQL_URI)
 
     db_conn_info = dict(
-                        db = parsed_uri.path[1:],
-                        host = parsed_uri.hostname,
-                        user = parsed_uri.username,
-                        passwd = parsed_uri.password)
+        db=parsed_uri.path[1:],
+        host=parsed_uri.hostname,
+        user=parsed_uri.username,
+        passwd=parsed_uri.password)
 
     print(db_conn_info)
     return db_conn_info
 
+
 def insert_probeset_resources(default_owner_id):
     current_resources = Redis.hgetall("resources")
     Cursor.execute("""  SELECT
@@ -63,20 +65,21 @@ def insert_probeset_resources(default_owner_id):
         resource_ob = {}
         resource_ob['name'] = resource[1]
         resource_ob['owner_id'] = default_owner_id
-        resource_ob['data'] = { "dataset" : str(resource[0])}
+        resource_ob['data'] = {"dataset": str(resource[0])}
         resource_ob['type'] = "dataset-probeset"
         if resource[2] < 1 and resource[3] > 0:
-            resource_ob['default_mask'] = { "data": "view",
-                                            "metadata": "view",
-                                            "admin": "not-admin"}
+            resource_ob['default_mask'] = {"data": "view",
+                                           "metadata": "view",
+                                           "admin": "not-admin"}
         else:
-            resource_ob['default_mask'] = { "data": "no-access",
-                                            "metadata": "no-access",
-                                            "admin": "not-admin"}
+            resource_ob['default_mask'] = {"data": "no-access",
+                                           "metadata": "no-access",
+                                           "admin": "not-admin"}
         resource_ob['group_masks'] = {}
 
         add_resource(resource_ob, update=False)
 
+
 def insert_publish_resources(default_owner_id):
     current_resources = Redis.hgetall("resources")
     Cursor.execute("""  SELECT 
@@ -97,12 +100,12 @@ def insert_publish_resources(default_owner_id):
             else:
                 resource_ob['name'] = str(resource[0])
             resource_ob['owner_id'] = default_owner_id
-            resource_ob['data'] = { "dataset" : str(resource[1]) ,
-                                    "trait"   : str(resource[0])}
+            resource_ob['data'] = {"dataset": str(resource[1]),
+                                   "trait": str(resource[0])}
             resource_ob['type'] = "dataset-publish"
-            resource_ob['default_mask'] = { "data": "view",
-                                            "metadata": "view",
-                                            "admin": "not-admin"}
+            resource_ob['default_mask'] = {"data": "view",
+                                           "metadata": "view",
+                                           "admin": "not-admin"}
 
             resource_ob['group_masks'] = {}
 
@@ -110,6 +113,7 @@ def insert_publish_resources(default_owner_id):
         else:
             continue
 
+
 def insert_geno_resources(default_owner_id):
     current_resources = Redis.hgetall("resources")
     Cursor.execute("""  SELECT
@@ -125,20 +129,21 @@ def insert_geno_resources(default_owner_id):
             resource_ob['owner_id'] = "c5ce8c56-78a6-474f-bcaf-7129d97f56ae"
         else:
             resource_ob['owner_id'] = default_owner_id
-        resource_ob['data'] = { "dataset" : str(resource[0]) }
+        resource_ob['data'] = {"dataset": str(resource[0])}
         resource_ob['type'] = "dataset-geno"
         if resource[2] < 1:
-            resource_ob['default_mask'] = { "data": "view",
-                                            "metadata": "view",
-                                            "admin": "not-admin"}
+            resource_ob['default_mask'] = {"data": "view",
+                                           "metadata": "view",
+                                           "admin": "not-admin"}
         else:
-            resource_ob['default_mask'] = { "data": "no-access",
-                                            "metadata": "no-access",
-                                            "admin": "not-admin"}
+            resource_ob['default_mask'] = {"data": "no-access",
+                                           "metadata": "no-access",
+                                           "admin": "not-admin"}
         resource_ob['group_masks'] = {}
 
         add_resource(resource_ob, update=False)
 
+
 def insert_resources(default_owner_id):
     current_resources = get_resources()
     print("START")
@@ -149,6 +154,7 @@ def insert_resources(default_owner_id):
     insert_probeset_resources(default_owner_id)
     print("AFTER PROBESET")
 
+
 def main():
     """Generates and outputs (as json file) the data for the main dropdown menus on the home page"""
 
@@ -158,6 +164,7 @@ def main():
 
     insert_resources(owner_id)
 
+
 if __name__ == '__main__':
     Conn = MySQLdb.Connect(**parse_db_uri())
     Cursor = Conn.cursor()