Fix to Env Var and Config persisting in options.ini in KOLIBRI_HOME (#…

…11737)

* override the configuration to default false

* remove conf overriding in _set_from_envvars

* remove envvar from conf that are in os.environ

kolibri/utils/options.py

@@ -992,6 +992,12 @@ def generate_empty_options_file(ini_filename="options.ini"):
 
     conf = read_options_file(ini_filename=ini_filename)
 
+    for section, opts in option_spec.items():
+        for optname, attrs in opts.items():
+            for envvar in attrs.get("envvars", []):
+                if envvar in os.environ:
+                    conf[section].pop(optname, None)
+
     comments = None
 
     for section, opts in option_spec.items():