authentication with other databases

healthcareio/__main__.py

@@ -44,7 +44,7 @@ app = typer.Typer()
 CONFIG_FOLDER = os.sep.join([os.environ['HOME'],'.healthcareio'])
 HOST = "https://healthcareio.the-phi.com" if 'PARSER_HOST_URL' not in os.environ else os.environ['PARSER_HOST_URL']
 @app.command(name='init')
-def config(email:str,provider:str='sqlite') :
+def config(email:str,provider:str='sqlite',auth_file:str=None) :
     """\b
     Generate configuration file needed with default data store. For supported data-store providers visit https://hiplab.mc.vanderbilt.edu/git/hiplab/data-transport.git
     
@@ -59,6 +59,13 @@ def config(email:str,provider:str='sqlite') :
     if not os.path.exists(CONFIG_FOLDER) :
         os.mkdir(CONFIG_FOLDER)
     
+    #
+    # NOTE:
+    # if a provider is setup as an environment variable, we override the parameter
+    # This is designed for developement and containers
+    #
+    if 'X12_DATABASE' in os.environ :
+        provider = os.environ['X12_DATABASE']
     if provider in ['sqlite','sqlite3'] :        
         _db = os.sep.join([CONFIG_FOLDER,_db+'.db3'])
 
@@ -75,6 +82,11 @@ def config(email:str,provider:str='sqlite') :
 
         }
     }
+    if auth_file and os.path.exists(auth_file) and provider not in ['sqlite','sqlite3'] :
+        f = open(auth_file)
+        _auth = json.loads(f.read())
+        f.close()
+        _config['store'] = dict(_config['store'],**_auth)
     #
     # Let create or retrieve a user's key/token to make sure he/she has access to features they need
     # This would also allow us to allow the users to be informed of new versions