1005 add histogram for visualization

src/navigate/controller/configurator.py

@@ -58,7 +58,7 @@
 class Configurator:
     """Navigate Configurator"""
 
-    def __init__(self, root, splash_screen):
+    def __init__(self, root: tk.Tk, splash_screen):
         """Initiates the configurator application window.
 
         Parameters
@@ -186,11 +186,12 @@ def set_value(temp_dict, key_list, value):
                                 if k.strip() == "":
                                     warning_info[hardware_name] = True
                                     print(
-                                        f"Notice: {hardware_name} has an empty value {ref}! Please double check if it's okay!"
+                                        f"Notice: {hardware_name} has an empty value "
+                                        f"{ref}! Please double check if it's okay!"
                                     )
 
                                 if k_idx in value_dict:
-                                    k = value_dict[k_idx][v]
+                                    k = value_dict[k_idx][v]  # noqa
                                 v = variables[v_idx].get()
                                 if v_idx in value_dict:
                                     v = value_dict[v_idx][v]
@@ -208,7 +209,8 @@ def set_value(temp_dict, key_list, value):
                         except tk._tkinter.TclError:
                             v = ""
                             print(
-                                f"Notice: {hardware_name} has an empty value {k}! Please double check!"
+                                f"Notice: {hardware_name} has an empty value {k}! "
+                                f"Please double check!"
                             )
                             warning_info[hardware_name] = True
                         set_value(temp_dict, k.split("/"), v)
@@ -218,7 +220,9 @@ def set_value(temp_dict, key_list, value):
         if warning_info:
             messagebox.showwarning(
                 title="Configuration",
-                message=f"There are empty value(s) with {', '.join(warning_info.keys())}. Please double check!",
+                message=f"There are empty value(s) with "
+                f"{', '.join(warning_info.keys())}"
+                f". Please double check!",
             )
 
     def write_to_yaml(self, config, filename):
@@ -404,7 +408,7 @@ def build_widgets_value(widgets, value_dict):
                                 hardware_ref_name
                             ],
                         )
-                    except Exception as e:
+                    except Exception:
                         widgets_value = [None]
                     microscope_tab.create_hardware_tab(
                         hardware_type, widgets, hardware_widgets_value=widgets_value
@@ -425,7 +429,7 @@ def build_widgets_value(widgets, value_dict):
                                 ],
                             ),
                         ]
-                    except:
+                    except Exception:
                         widgets_value = [[None], [None]]
                     microscope_tab.create_hardware_tab(
                         hardware_type,

src/navigate/controller/controller.py

@@ -40,7 +40,6 @@
 import os
 import time
 import platform
-import reprlib
 
 # Third Party Imports
 
@@ -64,6 +63,7 @@
     FeaturePopupController,
     MenuController,
     PluginsController,
+    HistogramController,
     # MicroscopePopupController,
     # AdaptiveOpticsPopupController,
 )
@@ -97,6 +97,7 @@
 
 class Controller:
     """Navigate Controller"""
+
     def __init__(
         self,
         root,
@@ -198,8 +199,10 @@ def __init__(
         verify_waveform_constants(self.manager, self.configuration)
 
         total_ram, available_ram = get_ram_info()
-        logger.info(f"Total RAM: {total_ram / 1024**3:.2f} GB. "
-                    f"Available RAM: {available_ram / 1024**3:.2f} GB.")
+        logger.info(
+            f"Total RAM: {total_ram / 1024**3:.2f} GB. "
+            f"Available RAM: {available_ram / 1024**3:.2f} GB."
+        )
 
         #: ObjectInSubprocess: Model object in MVC architecture.
         self.model = ObjectInSubprocess(
@@ -225,7 +228,7 @@ def __init__(
         self.event_listeners = {}
 
         #: AcquireBarController: Acquire Bar Sub-Controller.
-        self.acquire_bar_controller = AcquireBarController(self.view.acqbar, self)
+        self.acquire_bar_controller = AcquireBarController(self.view.acquire_bar, self)
 
         #: ChannelsTabController: Channels Tab Sub-Controller.
         self.channels_tab_controller = ChannelsTabController(
@@ -242,6 +245,11 @@ def __init__(
             self.view.camera_waveform.camera_tab, self
         )
 
+        #: HistogramController: Histogram Tab Sub-Controller.
+        self.histogram_controller = HistogramController(
+            self.view.misc.histogram_tab, self
+        )
+
         #: MIPSettingController: MIP Settings Tab Sub-Controller.
         self.mip_setting_controller = MIPViewController(
             self.view.camera_waveform.mip_tab, self
@@ -365,7 +373,7 @@ def update_buffer(self):
 
     def update_acquire_control(self):
         """Update the acquire control based on the current experiment parameters."""
-        self.view.acqbar.stop_stage.config(
+        self.view.acquire_bar.stop_stage.config(
             command=self.stage_controller.stop_button_handler
         )
 
@@ -551,12 +559,14 @@ def refresh(width, height):
             height : int
                 Height of the GUI.
             """
-            if width < 1200 or height < 600:
+            if width < 1300 or height < 800:
                 return
             self.view.camera_waveform["width"] = (
-                width - self.view.frame_left.winfo_width() - 81
-            )
-            self.view.camera_waveform["height"] = height - 110
+                width - self.view.left_frame.winfo_width() - 35
+            )  #
+            self.view.camera_waveform["height"] = height - 117
+
+            print("camera_waveform height", self.view.camera_waveform["height"])
 
         if event.widget != self.view.scroll_frame:
             return
@@ -1081,13 +1091,16 @@ def capture_image(self, command, mode, *args):
                 )
                 self.execute("stop_acquire")
 
-            # Display the Image in the View
+            # Display the image and update the histogram
             self.camera_view_controller.try_to_display_image(
                 image=self.data_buffer[image_id]
             )
             self.mip_setting_controller.try_to_display_image(
                 image=self.data_buffer[image_id]
             )
+            self.histogram_controller.populate_histogram(
+                image=self.data_buffer[image_id]
+            )
             images_received += 1
 
             # Update progress bar.
@@ -1212,7 +1225,9 @@ def display_images(
                 )
                 camera_view_controller.microscope_name = microscope_name
                 popup_window.popup.bind("<Configure>", camera_view_controller.resize)
-                self.additional_microscopes[microscope_name]["popup_window"] = popup_window
+                self.additional_microscopes[microscope_name][
+                    "popup_window"
+                ] = popup_window
                 self.additional_microscopes[microscope_name][
                     "camera_view_controller"
                 ] = camera_view_controller
@@ -1226,7 +1241,9 @@ def display_images(
                     ),
                 )
 
-            self.additional_microscopes[microscope_name]["show_img_pipe"] = show_img_pipe
+            self.additional_microscopes[microscope_name][
+                "show_img_pipe"
+            ] = show_img_pipe
             self.additional_microscopes[microscope_name]["data_buffer"] = data_buffer
 
             # start thread
@@ -1263,7 +1280,9 @@ def destroy_virtual_microscope(self, microscope_name, destroy_window=True):
         # destroy the popup window
         if destroy_window:
             self.additional_microscopes[microscope_name]["popup_window"].popup.dismiss()
-            self.additional_microscopes[microscope_name]["camera_view_controller"] = None
+            self.additional_microscopes[microscope_name][
+                "camera_view_controller"
+            ] = None
             del self.additional_microscopes[microscope_name]
 
     def move_stage(self, pos_dict):

src/navigate/controller/sub_controllers/__init__.py

@@ -18,6 +18,7 @@
 from .camera_map import CameraMapSettingPopupController  # noqa
 from .microscope_popup import MicroscopePopupController  # noqa
 from .adaptive_optics import AdaptiveOpticsPopupController  # noqa
+from .histogram import HistogramController  # noqa
 
 # from .uninstall_plugin_controller import UninstallPluginController  # noqa
 from .plugins import PluginsController, UninstallPluginController  # noqa

src/navigate/controller/sub_controllers/acquire_bar.py

@@ -44,6 +44,7 @@
 p = __name__.split(".")[1]
 logger = logging.getLogger(p)
 
+
 class AcquireBarController(GUIController):
     """Acquire Bar Controller."""
 
@@ -59,6 +60,9 @@ def __init__(self, view, parent_controller):
         """
         super().__init__(view, parent_controller)
 
+        #: AcquirePopUp: Instance of the popup window.
+        self.acquire_pop = None
+
         #: str: Acquisition image mode.
         self.mode = "live"
 
@@ -303,8 +307,8 @@ def launch_popup_window(self):
             self.parent_controller.execute("stop_acquire")
 
         elif self.is_save and self.mode != "live":
-            #: object: Instance of the popup save dialog.
             self.acquire_pop = AcquirePopUp(self.view)
+
             buttons = self.acquire_pop.get_buttons()
             widgets = self.acquire_pop.get_widgets()
 
@@ -313,6 +317,9 @@ def launch_popup_window(self):
             buttons["Done"].config(
                 command=lambda: self.launch_acquisition(self.acquire_pop)
             )
+            self.acquire_pop.popup.bind(
+                "<Escape>", lambda e: self.acquire_pop.popup.dismiss()
+            )
 
             # Configure drop down callbacks, will update save settings when file type is
             # changed
@@ -326,9 +333,7 @@ def launch_popup_window(self):
         else:
             self.is_acquiring = True
             self.view.acquire_btn.configure(state="disabled")
-            # self.view.pull_down.configure(state="disabled")
             self.view.pull_down.state(["disabled", "readonly"])
-
             self.parent_controller.execute("acquire")
 
     def update_microscope_mode(self, *args):

src/navigate/controller/sub_controllers/camera_view.py

@@ -59,6 +59,7 @@
 p = __name__.split(".")[1]
 logger = logging.getLogger(p)
 
+
 class ABaseViewController(metaclass=abc.ABCMeta):
     """Abstract Base View Controller Class."""
 
@@ -100,7 +101,7 @@ def __init__(self, view, parent_controller=None):
 
         Parameters
         ----------
-        view : tkinter.Frame
+        view : self.view.camera_waveform.camera_tab
             The tkinter frame that contains the widgets.
         parent_controller : Controller
             The parent controller of the camera view controller.
@@ -958,7 +959,7 @@ def refresh(self, width, height):
         if width == self.width and height == self.height:
             return
         self.canvas_width = width - self.view.lut.winfo_width() - 24
-        self.canvas_height = height - 85
+        self.canvas_height = height - 153
         self.view.canvas.config(width=self.canvas_width, height=self.canvas_height)
         self.view.update_idletasks()
 
@@ -1036,7 +1037,7 @@ def __init__(self, view, parent_controller=None):
 
         Parameters
         ----------
-        view : tkinter.Frame
+        view : self.view.camera_waveform.camera_tab
             The tkinter frame that contains the widgets.
         parent_controller : Controller
             The parent controller of the camera view controller.