updated runner structure so that handlers and conductors actually pull from queues in the runner. changes to logic in both are extensive, but most individual functinos are unaffected. I've also moved several functions that were part of individual monitor, handler and conductors to the base classes.

recipes/bash_recipe.py

@@ -65,13 +65,13 @@ class BashHandler(BaseHandler):
     # Where print messages are sent
     _print_target:Any
     def __init__(self, job_queue_dir:str=DEFAULT_JOB_QUEUE_DIR, name:str="",
-            print:Any=sys.stdout, logging:int=0)->None:
+            print:Any=sys.stdout, logging:int=0, pause_time:int=5)->None:
         """BashHandler Constructor. This creates jobs to be executed as 
         bash scripts. This does not run as a continuous thread to 
         handle execution, but is invoked according to a factory pattern using 
         the handle function. Note that if this handler is given to a MeowRunner
         object, the job_queue_dir will be overwridden by its"""
-        super().__init__(name=name)
+        super().__init__(name=name, pause_time=pause_time)
         self._is_valid_job_queue_dir(job_queue_dir)
         self.job_queue_dir = job_queue_dir
         self._print_target, self.debug_level = setup_debugging(print, logging)
@@ -180,7 +180,7 @@ class BashHandler(BaseHandler):
         threadsafe_write_status(meow_job, meta_file)
         
         # Send job directory, as actual definitons will be read from within it
-        self.send_to_runner(job_dir)
+        self.send_job_to_runner(job_dir)
 
 
 def assemble_bash_job_script()->List[str]: