Monitor plot (#66)

* Update base_monitor.py

* added plotting viewed compartments

Author: willgebhardt

ngclearn/components/base_monitor.py

@@ -2,8 +2,10 @@
 
 from ngclearn import Component, Compartment
 from ngclearn import numpy as np
-from ngcsimlib.utils import add_component_resolver, add_resolver_meta, get_current_path
+from ngcsimlib.utils import add_component_resolver, add_resolver_meta, \
+    get_current_path
 from ngcsimlib.logger import warn, critical
+import matplotlib.pyplot as plt
 
 
 class Base_Monitor(Component):
@@ -21,7 +23,8 @@ class Base_Monitor(Component):
     Using custom window length:
         myMonitor.watch(myComponent.myCompartment, customWindowLength)
 
-    To get values out of the monitor either path to the stored value directly, or pass in a compartment directly. All
+    To get values out of the monitor either path to the stored value
+    directly, or pass in a compartment directly. All
     paths are the same as their local path variable.
 
     Using a compartment:
@@ -30,7 +33,8 @@ class Base_Monitor(Component):
     Using a path:
         myMonitor.get_store(myComponent.myCompartment.path).value
 
-    There can only be one monitor in existence at a time due to the way it interacts with resolvers and the compilers
+    There can only be one monitor in existence at a time due to the way it
+    interacts with resolvers and the compilers
     for ngclearn.
 
     Args:
@@ -53,10 +57,10 @@ def build_advance(compartments):
 
         """
         critical(
-            "build_advance() is not defined on this monitor, use either the monitor found in ngclearn.components or "
+            "build_advance() is not defined on this monitor, use either the "
+            "monitor found in ngclearn.components or "
             "ngclearn.components.lava (If using lava)")
 
-
     @staticmethod
     def build_reset(compartments):
         """
@@ -66,6 +70,7 @@ def build_reset(compartments):
 
         Returns: The method to reset the stored values.
         """
+
         @staticmethod
         def _reset(**kwargs):
             return_vals = []
@@ -95,7 +100,8 @@ def __lshift__(self, other):
 
     def watch(self, compartment, window_length):
         """
-        Sets the monitor to watch a specific compartment, for a specified window length.
+        Sets the monitor to watch a specific compartment, for a specified
+        window length.
 
         Args:
             compartment: the compartment object to monitor
@@ -150,7 +156,7 @@ def halt_all(self):
         """
         for compartment in self._sources:
             self.halt(compartment)
-            
+
     def _update_resolver(self):
         output_compartments = []
         compartments = []
@@ -162,13 +168,18 @@ def _update_resolver(self):
         parameters = []
 
         add_component_resolver(self.__class__.__name__, "advance_state",
-                               (self.build_advance(compartments), output_compartments))
+                               (self.build_advance(compartments),
+                                output_compartments))
         add_resolver_meta(self.__class__.__name__, "advance_state",
-                          (args, parameters, compartments + [o for o in output_compartments], False))
+                          (args, parameters,
+                           compartments + [o for o in output_compartments],
+                           False))
 
-        add_component_resolver(self.__class__.__name__, "reset", (self.build_reset(compartments), output_compartments))
+        add_component_resolver(self.__class__.__name__, "reset", (
+        self.build_reset(compartments), output_compartments))
         add_resolver_meta(self.__class__.__name__, "reset",
-                          (args, parameters, [o for o in output_compartments], False))
+                          (args, parameters, [o for o in output_compartments],
+                           False))
 
     def _add_path(self, path):
         _path = path.split("/")[1:]
@@ -210,7 +221,8 @@ def save(self, directory, **kwargs):
         for key in self.compartments:
             n = key.split("/")[-1]
             _dict["sources"][key] = self.__dict__[n].value.shape
-            _dict["stores"][key + "*store"] = self.__dict__[n + "*store"].value.shape
+            _dict["stores"][key + "*store"] = self.__dict__[
+                n + "*store"].value.shape
 
         with open(file_name, "w") as f:
             json.dump(_dict, f)
@@ -221,9 +233,9 @@ def load(self, directory, **kwargs):
             vals = json.load(f)
 
             for comp_path, shape in vals["stores"].items():
-
                 compartment_path = comp_path.split("/")[-1]
-                new_path = get_current_path() + "/" + "/".join(compartment_path.split("*")[-3:-1])
+                new_path = get_current_path() + "/" + "/".join(
+                    compartment_path.split("*")[-3:-1])
 
                 cs, end = self._add_path(new_path)
 
@@ -233,8 +245,6 @@ def load(self, directory, **kwargs):
                 cs[end] = new_comp
                 setattr(self, compartment_path, new_comp)
 
-
-
             for comp_path, shape in vals['sources'].items():
                 compartment_path = comp_path.split("/")[-1]
                 new_comp = Compartment(np.zeros(shape))
@@ -244,3 +254,46 @@ def load(self, directory, **kwargs):
                 self.compartments.append(new_comp.path)
 
             self._update_resolver()
+
+    def make_plot(self, compartment, ax=None, ylabel=None, xlabel=None, title=None, n=None, plot_func=None):
+        vals = self.view(compartment)
+
+        if n is None:
+            n = vals.shape[2]
+        if title is None:
+            title = compartment.name.split("/")[0] + " " + compartment.display_name
+
+        if ylabel is None:
+            _ylabel = compartment.units
+        elif ylabel:
+            _ylabel = ylabel
+        else:
+            _ylabel = None
+
+        if xlabel is None:
+            _xlabel = "Time Steps"
+        elif xlabel:
+            _xlabel = xlabel
+        else:
+            _xlabel = None
+
+        if ax is None:
+            _ax = plt
+            _ax.title(title)
+            if _ylabel:
+                _ax.ylabel(_ylabel)
+            if _xlabel:
+                _ax.xlabel(_xlabel)
+        else:
+            _ax = ax
+            _ax.set_title(title)
+            if _ylabel:
+                _ax.set_ylabel(_ylabel)
+            if _xlabel:
+                _ax.set_xlabel(_xlabel)
+
+        if plot_func is None:
+            for k in range(n):
+                _ax.plot(vals[:, 0, k])
+        else:
+            plot_func(vals, ax=_ax)