Starting to use project_config values

client/cli/bam.py

@@ -50,6 +50,7 @@ class bam_config:
     def find_basedir(cwd=None):
         """
         Return the config path (or None when not found)
+        Actually should raise an error?
         """
         import os
 
@@ -73,7 +74,8 @@ class bam_config:
         return None
 
     @staticmethod
-    def load(id_, cwd=None):
+    def load(id_="config", cwd=None):
+        import os
         basedir = bam_config.find_basedir(cwd=cwd)
         filepath = os.path.join(basedir, id_)
 
@@ -112,8 +114,10 @@ class bam_utils:
     @staticmethod
     def session_request_url(req_path):
         # TODO, get from config
+        project_config = bam_config.load()
+
         BAM_SERVER = bam_utils.session_find_url()
-        result = "%s/%s" % (BAM_SERVER, req_path)
+        result = "%s/%s" % (project_config['url'], req_path)
         return result
 
     @staticmethod
@@ -143,6 +147,7 @@ class bam_utils:
                  },
                 cwd=bam_folder)
 
+
         print("Project %s initialized" % project_directory_name)
 
     @staticmethod
@@ -151,6 +156,9 @@ class bam_utils:
         import os
         import requests
 
+        # Load project configuration
+        project_config = bam_config.load()
+
         # TODO(cam) multiple paths
         path = paths[0]
         del paths
@@ -166,7 +174,7 @@ class bam_utils:
         r = requests.get(
                 bam_utils.session_request_url("file"),
                 params=payload,
-                auth=("bam", "bam"),
+                auth=(project_config['user'], project_config['password']),
                 stream=True,
                 )
 
@@ -228,6 +236,9 @@ class bam_utils:
         import requests
         from bam_utils.system import sha1_from_file
 
+        # Load project configuration
+        project_config = bam_config.load()
+
         # TODO(cam) ignore files
 
         # TODO(cam) multiple paths
@@ -294,7 +305,7 @@ class bam_utils:
         r = requests.put(
                 bam_utils.session_request_url("file"),
                 params=payload,
-                auth=('bam', 'bam'),
+                auth=(project_config['user'], project_config['password']),
                 files=files)
         print("Return is:", r.text)
 
@@ -306,6 +317,9 @@ class bam_utils:
         import sys
         import requests
 
+        # Load project configuration
+        project_config = bam_config.load()
+
         # TODO(cam) multiple paths
         path = paths[0]
         del paths
@@ -316,7 +330,7 @@ class bam_utils:
         r = requests.get(
                 bam_utils.session_request_url("file_list"),
                 params=payload,
-                auth=("bam", "bam"),
+                auth=(project_config['user'], project_config['password']),
                 stream=True,
                 )
 

webservice/bam/application/__init__.py

@@ -71,7 +71,7 @@ class FilesListAPI(Resource):
         args = parser.parse_args()
         super(FilesListAPI, self).__init__()
 
-    def get(self):
+    def get(self, project_name):
 
         path = request.args['path']
         if not path:
@@ -130,7 +130,7 @@ class FileAPI(Resource):
 
         super(FileAPI, self).__init__()
 
-    def get(self):
+    def get(self, project_name):
         filepath = request.args['filepath']
         command = request.args['command']
 
@@ -191,7 +191,7 @@ class FileAPI(Resource):
         else:
             return jsonify(message="Command unknown")
 
-    def put(self):
+    def put(self, project_name):
         command = request.args['command']
         arguments = ''
         if 'arguments' in request.args:
@@ -271,6 +271,6 @@ class FileAPI(Resource):
             filename.rsplit('.', 1)[1] in app.config['ALLOWED_EXTENSIONS']
 
 
-api.add_resource(FilesListAPI, '/file_list', endpoint='file_list')
+api.add_resource(FilesListAPI, '/<project_name>/file_list', endpoint='file_list')
-api.add_resource(FileAPI, '/file', endpoint='file')
+api.add_resource(FileAPI, '/<project_name>/file', endpoint='file')