spacr 0.0.2__py3-none-any.whl → 0.0.6__py3-none-any.whl

spacr/gui_utils.py

@@ -1,18 +1,284 @@
-import spacr, inspect, traceback, io, sys, ast, ctypes, matplotlib, re, csv
+import os, spacr, inspect, traceback, io, sys, ast, ctypes, matplotlib, re, csv, requests
 import matplotlib.pyplot as plt
 matplotlib.use('Agg')
 import numpy as np
 import tkinter as tk
 from tkinter import ttk, messagebox
-from tkinter.font import nametofont
+import tkinter.font as tkFont
 from torchvision import models
+#from ttf_opensans import opensans
+
+from tkinter import font as tkFont
+
+
+from .logger import log_function_call
 
 try:
     ctypes.windll.shcore.SetProcessDpiAwareness(True)
 except AttributeError:
     pass
 
-from .logger import log_function_call
+class ToolTip:
+    def __init__(self, widget, text):
+        self.widget = widget
+        self.text = text
+        self.tooltip_window = None
+        widget.bind("<Enter>", self.show_tooltip)
+        widget.bind("<Leave>", self.hide_tooltip)
+
+    def show_tooltip(self, event):
+        x = event.x_root + 20
+        y = event.y_root + 10
+        self.tooltip_window = tk.Toplevel(self.widget)
+        self.tooltip_window.wm_overrideredirect(True)
+        self.tooltip_window.wm_geometry(f"+{x}+{y}")
+        label = tk.Label(self.tooltip_window, text=self.text, background="yellow", relief='solid', borderwidth=1)
+        label.pack()
+
+    def hide_tooltip(self, event):
+        if self.tooltip_window:
+            self.tooltip_window.destroy()
+        self.tooltip_window = None
+
+
+def load_app(root, app_name, app_func):
+    # Destroy the current window
+    root.destroy()
+    # Create a new window for the app
+    app_window = tk.Tk()
+    app_window.title(f"SpaCr - {app_name}")
+    app_window.geometry("1200x800")
+    #app_window.attributes('-fullscreen', True)
+    app_window.configure(bg="black")
+    create_menu_bar(app_window)  # Add menu to the new window
+    app_func(app_window, app_window.winfo_width(), app_window.winfo_height())
+
+def create_menu_bar(root):
+
+    from .gui_mask_app import initiate_mask_root
+    from .gui_measure_app import initiate_measure_root
+    from .annotate_app import initiate_annotation_app_root
+    from .mask_app import initiate_mask_app_root
+    from .gui_classify_app import initiate_classify_root
+
+    gui_apps = {
+        "Mask": initiate_mask_root,
+        "Measure": initiate_measure_root,
+        "Annotate": initiate_annotation_app_root,
+        "Make Masks": initiate_mask_app_root,
+        "Classify": initiate_classify_root
+    }
+    # Create the menu bar
+    menu_bar = tk.Menu(root, bg="#008080", fg="white")
+    # Create a "SpaCr Applications" menu
+    app_menu = tk.Menu(menu_bar, tearoff=0, bg="#008080", fg="white")
+    menu_bar.add_cascade(label="SpaCr Applications", menu=app_menu)
+    # Add options to the "SpaCr Applications" menu
+    for app_name, app_func in gui_apps.items():
+        app_menu.add_command(label=app_name, command=lambda app_name=app_name, app_func=app_func: load_app(root, app_name, app_func))
+    # Add a separator and an exit option
+    app_menu.add_separator()
+    app_menu.add_command(label="Exit", command=root.quit)
+    # Configure the menu for the root window
+    root.config(menu=menu_bar)
+
+class CustomButton(tk.Frame):
+    def __init__(self, parent, text="", command=None, *args, **kwargs):
+        super().__init__(parent, *args, **kwargs)
+        self.text = text
+        self.command = command
+
+        self.canvas = tk.Canvas(self, width=150, height=50, highlightthickness=0, bg="black")
+        self.canvas.grid(row=0, column=0)
+
+        self.button_bg = self.create_rounded_rectangle(0, 0, 150, 50, radius=20, fill="#800080")
+
+        # Create a Tkinter font object using OpenSans
+        self.font_style = tkFont.Font(family="Arial", size=12, weight=tkFont.NORMAL)
+        self.button_text = self.canvas.create_text(75, 25, text=self.text, fill="white", font=self.font_style)
+
+        self.bind("<Enter>", self.on_enter)
+        self.bind("<Leave>", self.on_leave)
+        self.bind("<Button-1>", self.on_click)
+        self.canvas.bind("<Enter>", self.on_enter)
+        self.canvas.bind("<Leave>", self.on_leave)
+        self.canvas.bind("<Button-1>", self.on_click)
+
+    def on_enter(self, event=None):
+        self.canvas.itemconfig(self.button_bg, fill="#993399")
+
+    def on_leave(self, event=None):
+        self.canvas.itemconfig(self.button_bg, fill="#800080")
+
+    def on_click(self, event=None):
+        if self.command:
+            self.command()
+
+    def create_rounded_rectangle(self, x1, y1, x2, y2, radius=20, **kwargs):
+        points = [x1 + radius, y1,
+                  x1 + radius, y1,
+                  x2 - radius, y1,
+                  x2 - radius, y1,
+                  x2, y1,
+                  x2, y1 + radius,
+                  x2, y1 + radius,
+                  x2, y2 - radius,
+                  x2, y2 - radius,
+                  x2, y2,
+                  x2 - radius, y2,
+                  x2 - radius, y2,
+                  x1 + radius, y2,
+                  x1 + radius, y2,
+                  x1, y2,
+                  x1, y2 - radius,
+                  x1, y2 - radius,
+                  x1, y1 + radius,
+                  x1, y1 + radius,
+                  x1, y1]
+
+        return self.canvas.create_polygon(points, **kwargs, smooth=True)
+    
+class ToggleSwitch(ttk.Frame):
+    def __init__(self, parent, text="", variable=None, command=None, *args, **kwargs):
+        super().__init__(parent, *args, **kwargs)
+        self.text = text
+        self.variable = variable if variable else tk.BooleanVar()
+        self.command = command
+        
+        self.canvas = tk.Canvas(self, width=40, height=20, highlightthickness=0, bd=0, bg="black")
+        self.canvas.grid(row=0, column=1, padx=(10, 0))
+        
+        # Background rounded rectangle with smaller dimensions and no outline
+        self.switch_bg = self.create_rounded_rectangle(2, 2, 38, 18, radius=9, outline="", fill="#fff")
+
+        # Switch ball with no outline
+        self.switch = self.canvas.create_oval(4, 4, 16, 16, outline="", fill="#800080")  # Purple initially
+        
+        self.label = ttk.Label(self, text=self.text, background="black", foreground="white")
+        self.label.grid(row=0, column=0, padx=(0, 10))
+        
+        self.bind("<Button-1>", self.toggle)
+        self.canvas.bind("<Button-1>", self.toggle)
+        self.label.bind("<Button-1>", self.toggle)
+        
+        self.update_switch()
+
+    def toggle(self, event=None):
+        self.variable.set(not self.variable.get())
+        self.animate_switch()
+        if self.command:
+            self.command()
+
+    def update_switch(self):
+        if self.variable.get():
+            self.canvas.itemconfig(self.switch, fill="#008080")  # Teal
+            self.canvas.coords(self.switch, 24, 4, 36, 16)  # Move switch to the right
+        else:
+            self.canvas.itemconfig(self.switch, fill="#800080")  # Purple
+            self.canvas.coords(self.switch, 4, 4, 16, 16)  # Move switch to the left
+
+    def animate_switch(self):
+        if self.variable.get():
+            start_x, end_x = 4, 24
+            final_color = "#008080"  # Teal
+        else:
+            start_x, end_x = 24, 4
+            final_color = "#800080"  # Purple
+
+        self.animate_movement(start_x, end_x, final_color)
+
+    def animate_movement(self, start_x, end_x, final_color):
+        step = 1 if start_x < end_x else -1
+        for i in range(start_x, end_x, step):
+            self.canvas.coords(self.switch, i, 4, i + 12, 16)
+            self.canvas.update()
+            self.after(10)  # Small delay for smooth animation
+        self.canvas.itemconfig(self.switch, fill=final_color)
+
+    def get(self):
+        return self.variable.get()
+
+    def set(self, value):
+        self.variable.set(value)
+        self.update_switch()
+
+    def create_rounded_rectangle(self, x1, y1, x2, y2, radius=9, **kwargs):  # Smaller radius for smaller switch
+        points = [x1 + radius, y1,
+                  x1 + radius, y1,
+                  x2 - radius, y1,
+                  x2 - radius, y1,
+                  x2, y1,
+                  x2, y1 + radius,
+                  x2, y1 + radius,
+                  x2, y2 - radius,
+                  x2, y2 - radius,
+                  x2, y2,
+                  x2 - radius, y2,
+                  x2 - radius, y2,
+                  x1 + radius, y2,
+                  x1 + radius, y2,
+                  x1, y2,
+                  x1, y2 - radius,
+                  x1, y2 - radius,
+                  x1, y1 + radius,
+                  x1, y1 + radius,
+                  x1, y1]
+
+        return self.canvas.create_polygon(points, **kwargs, smooth=True)
+    
+def set_default_font(root, font_name="Arial", size=12):
+    default_font = (font_name, size)
+    root.option_add("*Font", default_font)
+    root.option_add("*TButton.Font", default_font)
+    root.option_add("*TLabel.Font", default_font)
+    root.option_add("*TEntry.Font", default_font)
+
+def check_and_download_font():
+    font_name = "Arial"
+    font_dir = "fonts"
+    font_path = os.path.join(font_dir, "OpenSans-Regular.ttf")
+
+    # Check if the font is already available
+    available_fonts = list(tkFont.families())
+    if font_name not in available_fonts:
+        print(f"Font '{font_name}' not found. Downloading...")
+        if not os.path.exists(font_dir):
+            os.makedirs(font_dir)
+
+        if not os.path.exists(font_path):
+            url = "https://github.com/google/fonts/blob/main/apache/opensans/OpenSans-Regular.ttf?raw=true"
+            response = requests.get(url)
+            with open(font_path, "wb") as f:
+                f.write(response.content)
+
+        # Load the font
+        try:
+            tkFont.nametofont("TkDefaultFont").configure(family=font_name, size=10)
+            tkFont.nametofont("TkTextFont").configure(family=font_name, size=10)
+            tkFont.nametofont("TkHeadingFont").configure(family=font_name, size=12)
+        except tk.TclError:
+            tkFont.nametofont("TkDefaultFont").configure(family="Arial", size=10)
+            tkFont.nametofont("TkTextFont").configure(family="Arial", size=10)
+            tkFont.nametofont("TkHeadingFont").configure(family="Arial", size=12)
+    else:
+        tkFont.nametofont("TkDefaultFont").configure(family=font_name, size=10)
+        tkFont.nametofont("TkTextFont").configure(family=font_name, size=10)
+        tkFont.nametofont("TkHeadingFont").configure(family=font_name, size=12)
+
+def style_text_boxes(style):
+    check_and_download_font()
+    font_style = tkFont.Font(family="Arial", size=10)  # Define the Arial font
+    style.configure('TEntry', padding='5 5 5 5', borderwidth=1, relief='solid', fieldbackground='#000000', foreground='#ffffff', font=font_style)
+    style.configure('TCombobox', fieldbackground='#000000', background='#000000', foreground='#ffffff', font=font_style)
+    style.configure('Custom.TButton', padding='10 10 10 10', borderwidth=1, relief='solid', background='#008080', foreground='#ffffff', font=font_style)
+    style.map('Custom.TButton',
+              background=[('active', '#66b2b2'), ('disabled', '#004d4d'), ('!disabled', '#008080')],
+              foreground=[('active', '#ffffff'), ('disabled', '#888888')])
+    style.configure('Custom.TLabel', padding='5 5 5 5', borderwidth=1, relief='flat', background='#000000', foreground='#ffffff', font=font_style)
+    style.configure('TCheckbutton', background='#333333', foreground='#ffffff', indicatoron=False, relief='flat', font=font_style)
+    style.map('TCheckbutton', background=[('selected', '#555555'), ('active', '#555555')])
+
+
 
 def read_settings_from_csv(csv_file_path):
     settings = {}
@@ -51,17 +317,8 @@ def disable_interactivity(fig):
         for handler_id in list(handlers.keys()):
             fig.canvas.mpl_disconnect(handler_id)
 
-def set_default_font(app, font_name="Arial Bold", size=10):
-    default_font = nametofont("TkDefaultFont")
-    text_font = nametofont("TkTextFont")
-    fixed_font = nametofont("TkFixedFont")
-    
-    # Set the family to Open Sans and size as desired
-    for font in (default_font, text_font, fixed_font):
-        font.config(family=font_name, size=size)
-
 class ScrollableFrame(ttk.Frame):
-    def __init__(self, container, *args, bg='#333333', **kwargs):
+    def __init__(self, container, *args, bg='black', **kwargs):
         super().__init__(container, *args, **kwargs)
         self.configure(style='TFrame')  # Ensure this uses the styled frame from dark mode
         
@@ -366,32 +623,31 @@ def classify_variables():
     }
     return variables
     
-
-#@log_function_call
 def create_input_field(frame, label_text, row, var_type='entry', options=None, default_value=None):
-    label = ttk.Label(frame, text=label_text, style='TLabel')  # Assuming you have a dark mode style for labels too
+    label = ttk.Label(frame, text=label_text, style='Custom.TLabel')  # Apply Custom.TLabel style for labels
     label.grid(column=0, row=row, sticky=tk.W, padx=5, pady=5)
     
     if var_type == 'entry':
         var = tk.StringVar(value=default_value)  # Set default value
-        entry = ttk.Entry(frame, textvariable=var, style='TEntry')  # Assuming you have a dark mode style for entries
+        entry = ttk.Entry(frame, textvariable=var, style='TEntry')  # Apply TEntry style for entries
         entry.grid(column=1, row=row, sticky=tk.EW, padx=5)
+        return (label, entry, var)  # Return both the label and the entry, and the variable
     elif var_type == 'check':
         var = tk.BooleanVar(value=default_value)  # Set default value (True/False)
-        # Use the custom style for Checkbutton
-        check = ttk.Checkbutton(frame, variable=var, style='Dark.TCheckbutton')
+        check = ToggleSwitch(frame, text=label_text, variable=var)  # Use ToggleSwitch class
         check.grid(column=1, row=row, sticky=tk.W, padx=5)
+        return (label, check, var)  # Return both the label and the checkbutton, and the variable
     elif var_type == 'combo':
         var = tk.StringVar(value=default_value)  # Set default value
-        combo = ttk.Combobox(frame, textvariable=var, values=options, style='TCombobox')  # Assuming you have a dark mode style for comboboxes
+        combo = ttk.Combobox(frame, textvariable=var, values=options, style='TCombobox')  # Apply TCombobox style
         combo.grid(column=1, row=row, sticky=tk.EW, padx=5)
         if default_value:
             combo.set(default_value)
+        return (label, combo, var)  # Return both the label and the combobox, and the variable
     else:
         var = None  # Placeholder in case of an undefined var_type
-    
-    return var
-    
+        return (label, None, var)
+
 def mask_variables():
     variables = {
         'src': ('entry', None, '/mnt/data/CellVoyager/40x/einar/mitotrackerHeLaToxoDsRed_20240224_123156/test_gui'),
@@ -457,10 +713,98 @@ def add_mask_gui_defaults(settings):
 def generate_fields(variables, scrollable_frame):
     vars_dict = {}
     row = 0
+    tooltips = {
+        "src": "Path to the folder containing the images.",
+        "metadata_type": "Type of metadata to expect in the images. This will determine how the images are processed. If 'custom' is selected, you can provide a custom regex pattern to extract metadata from the image names",
+        "custom_regex": "Custom regex pattern to extract metadata from the image names. This will only be used if 'custom' is selected for 'metadata_type'.",
+        "experiment": "Name of the experiment. This will be used to name the output files.",
+        "channels": "List of channels to use for the analysis. The first channel is 0, the second is 1, and so on. For example, [0,1,2] will use channels 0, 1, and 2.",
+        "magnification": "At what magnification the images were taken. This will be used to determine the size of the objects in the images.",
+        "nucleus_channel": "The channel to use for the nucleus. If None, the nucleus will not be segmented.",
+        "nucleus_background": "The background intensity for the nucleus channel. This will be used to remove background noise.",
+        "nucleus_Signal_to_noise": "The signal-to-noise ratio for the nucleus channel. This will be used to determine the range of intensities to normalize images to for nucleus segmentation.",
+        "nucleus_CP_prob": "The cellpose probability threshold for the nucleus channel. This will be used to segment the nucleus.",
+        "cell_channel": "The channel to use for the cell. If None, the cell will not be segmented.",
+        "cell_background": "The background intensity for the cell channel. This will be used to remove background noise.",
+        "cell_Signal_to_noise": "The signal-to-noise ratio for the cell channel. This will be used to determine the range of intensities to normalize images to for cell segmentation.",
+        "cell_CP_prob": "The cellpose probability threshold for the cell channel. This will be used to segment the cell.",
+        "pathogen_channel": "The channel to use for the pathogen. If None, the pathogen will not be segmented.",
+        "pathogen_background": "The background intensity for the pathogen channel. This will be used to remove background noise.",
+        "pathogen_Signal_to_noise": "The signal-to-noise ratio for the pathogen channel. This will be used to determine the range of intensities to normalize images to for pathogen segmentation.",
+        "pathogen_CP_prob": "The cellpose probability threshold for the pathogen channel. This will be used to segment the pathogen.",
+        "preprocess": "Whether to preprocess the images before segmentation. This includes background removal and normalization. Set to False only if this step has already been done.",
+        "masks": "Whether to generate masks for the segmented objects. If True, masks will be generated for the nucleus, cell, and pathogen.",
+        "examples_to_plot": "The number of images to plot for each segmented object. This will be used to visually inspect the segmentation results and normalization .",
+        "randomize": "Whether to randomize the order of the images before processing. Recommended to avoid bias in the segmentation.",
+        "batch_size": "The batch size to use for processing the images. This will determine how many images are processed at once. Images are normalized and segmented in batches. Lower if application runs out of RAM or VRAM.",
+        "timelapse": "Whether to process the images as a timelapse.",
+        "timelapse_displacement": "The displacement between frames in the timelapse. This will be used to align the frames before processing.",
+        "timelapse_memory": "The number of frames to in tandem objects must be present in to be considered the same object in the timelapse.",
+        "timelapse_frame_limits": "The frame limits to use for the timelapse. This will determine which frames are processed. For example, [5,20] will process frames 5 to 20.",
+        "timelapse_remove_transient": "Whether to remove transient objects in the timelapse. Transient objects are present in fewer than all frames.",
+        "timelapse_mode": "The mode to use for processing the timelapse. 'trackpy' uses the trackpy library for tracking objects, while 'btrack' uses the btrack library.",
+        "timelapse_objects": "The objects to track in the timelapse (cell, nucleus or pathogen). This will determine which objects are tracked over time. If None, all objects will be tracked.",
+        "fps": "Frames per second of the automatically generated timelapse movies.",
+        "remove_background": "Whether to remove background noise from the images. This will help improve the quality of the segmentation.",
+        "lower_quantile": "The lower quantile to use for normalizing the images. This will be used to determine the range of intensities to normalize images to.",
+        "merge_pathogens": "Whether to merge pathogen objects that share more than 75% of their perimiter.",
+        "normalize_plots": "Whether to normalize the plots.",
+        "all_to_mip": "Whether to convert all images to maximum intensity projections before processing.",
+        "pick_slice": "Whether to pick a single slice from the z-stack images. If False, the maximum intensity projection will be used.",
+        "skip_mode": "The mode to use for skipping images. This will determine how to handle images that cannot be processed.",
+        "save": "Whether to save the results to disk.",
+        "plot": "Whether to plot the results.",
+        "workers": "The number of workers to use for processing the images. This will determine how many images are processed in parallel. Increase to speed up processing.",
+        "verbose": "Whether to print verbose output during processing.",
+        "input_folder": "Path to the folder containing the images.",
+        "cell_mask_dim": "The dimension of the array the cell mask is saved in.",
+        "cell_min_size": "The minimum size of cell objects in pixels2.",
+        "cytoplasm_min_size": "The minimum size of cytoplasm objects in pixels2.",
+        "nucleus_mask_dim": "The dimension of the array the nucleus mask is saved in.",
+        "nucleus_min_size": "The minimum size of nucleus objects in pixels2.",
+        "pathogen_mask_dim": "The dimension of the array the pathogen mask is saved in.",
+        "pathogen_min_size": "The minimum size of pathogen objects in pixels2.",
+        "save_png": "Whether to save the segmented objects as PNG images.",
+        "crop_mode": "The mode to use for cropping the images. This will determine which objects are cropped from the images (cell, nucleus, pathogen, cytoplasm).",
+        "use_bounding_box": "Whether to use the bounding box of the objects for cropping. If False, only the object itself will be cropped.",
+        "png_size": "The size of the PNG images to save. This will determine the size of the saved images.",
+        "normalize": "The percentiles to use for normalizing the images. This will be used to determine the range of intensities to normalize images to., if None, no normalization is done.",
+        "png_dims": "The dimensions of the PNG images to save. This will determine the dimensions of the saved images. Maximum of 3 dimensions e.g. [1,2,3].",
+        "normalize_by": "Whether to normalize the images by field of view (fov) or by PNG image (png).",
+        "save_measurements": "Whether to save the measurements to disk.",
+        "representative_images": "Whether to save representative images of the segmented objects (Not working yet).",
+        "plot": "Whether to plot results.",
+        "plot_filtration": "Whether to plot the filtration steps.",
+        "include_uninfected": "Whether to include uninfected cells in the analysis.",
+        "dialate_pngs": "Whether to dialate the PNG images before saving.",
+        "dialate_png_ratios": "The ratios to use for dialating the PNG images. This will determine the amount of dialation applied to the images before cropping.",
+        "timelapse_objects": "The objects to track in the timelapse (cell, nucleus or pathogen). This will determine which objects are tracked over time. If None, all objects will be tracked.",
+        "max_workers": "The number of workers to use for processing the images. This will determine how many images are processed in parallel. Increase to speed up processing.",
+        "cells: ": "The cell types to include in the analysis.",
+        "cell_loc": "The locations of the cell types in the images.",
+        "pathogens": "The pathogen types to include in the analysis.",
+        "pathogen_loc": "The locations of the pathogen types in the images.",
+        "treatments": "The treatments to include in the analysis.",
+        "treatment_loc": "The locations of the treatments in the images.",
+        "channel_of_interest": "The channel of interest to use for the analysis.",
+        "compartments": "The compartments to measure in the images.",
+        "measurement": "The measurement to use for the analysis.",
+        "nr_imgs": "The number of images to plot.",
+        "um_per_pixel": "The micrometers per pixel for the images.",
+    }
+
     for key, (var_type, options, default_value) in variables.items():
-        vars_dict[key] = create_input_field(scrollable_frame.scrollable_frame, key, row, var_type, options, default_value)
+        label, widget, var = create_input_field(scrollable_frame.scrollable_frame, key, row, var_type, options, default_value)
+        vars_dict[key] = (label, widget, var)  # Store the label, widget, and variable
+        
+        # Add tooltip to the label if it exists in the tooltips dictionary
+        if key in tooltips:
+            ToolTip(label, tooltips[key])
+        
         row += 1
     return vars_dict
+
+
     
 class TextRedirector(object):
     def __init__(self, widget, queue):
@@ -474,7 +818,7 @@ class TextRedirector(object):
         pass
 
 def create_dark_mode(root, style, console_output):
-    dark_bg = '#333333'
+    dark_bg = 'black'
     light_text = 'white'
     dark_text = 'black'
     input_bg = '#555555'  # Slightly lighter background for input fields
@@ -494,12 +838,12 @@ def create_dark_mode(root, style, console_output):
     root.configure(bg=dark_bg)
     
 def set_dark_style(style):
-    style.configure('TFrame', background='#333333')
-    style.configure('TLabel', background='#333333', foreground='white')
-    style.configure('TEntry', background='#333333', foreground='white')
-    style.configure('TCheckbutton', background='#333333', foreground='white')
+    style.configure('TFrame', background='black')
+    style.configure('TLabel', background='black', foreground='white')
+    style.configure('TEntry', background='black', foreground='white')
+    style.configure('TCheckbutton', background='black', foreground='white')
 
-#@log_function_call   
+##@log_function_call   
 def main_thread_update_function(root, q, fig_queue, canvas_widget, progress_label):
     try:
         ansi_escape_pattern = re.compile(r'\x1B\[[0-?]*[ -/]*[@-~]')
@@ -580,7 +924,7 @@ def measure_crop_wrapper(settings, q, fig_queue):
 
     try:
         print('start')
-        spacr.measure.measure_crop(settings=settings, annotation_settings={}, advanced_settings={})
+        spacr.measure.measure_crop(settings=settings)
     except Exception as e:
         errorMessage = f"Error during processing: {e}"
         q.put(errorMessage)  # Send the error message to the GUI via the queue
@@ -588,7 +932,7 @@ def measure_crop_wrapper(settings, q, fig_queue):
     finally:
         plt.show = original_show  # Restore the original plt.show function
         
-@log_function_call
+#@log_function_call
 def preprocess_generate_masks_wrapper(settings, q, fig_queue):
     """
     Wraps the measure_crop function to integrate with GUI processes.