Added a TemplateWrapper for the integration of new Algorithms

cami/TemplateWrapper.py

@@ -18,17 +18,15 @@ class TemplateWrapper(AlgorithmWrapper):
         
         The only instance variables that need to be defined for each tool individually are:
         - name (string): The name of the algorithm/tool
-        - code (int): A unique integer code for this tool. Choose any number that is not taken by other tools yet (currently taken are: 0,1,2,3)
+        - code (int): A unique integer code for this tool. Choose any number (<21) that is not taken by other tools yet (currently taken are: 0,1,2,3)
         - any constant numbers or variables that are defined in the config file for this tool
         """
         super().__init__()
-        self.name = 'DIAMOnD'
-        self.code = 1
+        self.name = '<tool_name>'
+        self.code = 4
         config = ConfigParser()
         config.read(self.config)
-        self.alpha = int(config.get('diamond', 'alpha'))
-        self.pred_factor = int(config.get('diamond', 'pred_factor'))
-        self.max_preds = int(config.get('diamond', 'max_preds'))
+#        self.nof_predictions = int(config.get('<tool_name>', 'nof_predictions'))
 
     def run_algorithm(self, inputparams):
         """Execute the algorithm. Ideally the algorithm is a command line tool that takes

cami/preprocess.py

@@ -34,7 +34,7 @@ def csv2graph(inputfile,
                 break
 
     g.vertex_properties["cami_score"] = g.new_vertex_property("float", val=0.0)
-    values = (nof_tools + 6) * [-1]
+    values = (20) * [-1]
     g.vertex_properties["predicted_by"] = g.new_vertex_property("vector<int16_t>", val=values)
     return g