Update app.py

app.py

@@ -1,3 +1,27 @@
+'''
+This is the originall CLL Explorer application that allows users to upload, process, and save images.
+
+The application provides the following functionalities:
+- Upload microscope images.
+- Adjust image view with zoom and enhancement controls.
+- Detect and measure cells automatically.
+- Save analysis results and annotations.
+
+The application is divided into the following sections:
+1. **Upload Images**: Users can upload microscope images in JPG or PNG format.
+2. **Select Image**: Users can select an image from the uploaded files.
+3. **Processed Image**: Displays the processed image with zoom and enhancement controls.
+4. **Image Controls**: Allows users to adjust the image view with sliders for X and Y coordinates, zoom, contrast, brightness, and sharpness.
+5. **Save Options**: Provides options to save the processed image, image description, and image parameters.
+
+To run the application:
+1. Save the script in a Python file (e.g., app.py).
+2. Run the script using the Streamlit command:
+```bash
+streamlit run app.py
+```
+'''
+
 import streamlit as st
 from PIL import Image, ImageEnhance
 import pandas as pd
@@ -13,7 +37,7 @@ def zoom_at(img, x, y, zoom):
     return img.resize((w, h), Image.LANCZOS)
 
 st.set_page_config(page_title="Cell Explorer", layout="wide")
-st.title("CLL Explorer - Annotation Tool")
+st.title("CLL Explorer - Annotate: Upload, Process, and Save Images")
 
 st.markdown("""
 ### About This Application
@@ -31,12 +55,22 @@ if uploaded_files:
     img_data = uploaded_files[img_index].read()
     img = Image.open(io.BytesIO(img_data)).resize((500, 500))
 
-    col1, col2 = st.columns([3, 2])
+    # Display the original image first
+    st.subheader("Original Image")
+    st.image(img, caption="Original Image", use_column_width=True)
 
-    with col1:
-        st.image(img, caption="Uploaded Image", use_column_width=True)
+    # Arrange layout for processed image and controls
+    processed_col, controls_col = st.columns([3, 2])
 
-    with col2:
+    with processed_col:
+        st.subheader("Processed Image")
+        img_zoomed = zoom_at(img, 250, 250, 5)
+        img_contrast = ImageEnhance.Contrast(img_zoomed).enhance(1.0)
+        img_bright = ImageEnhance.Brightness(img_contrast).enhance(1.0)
+        img_sharp = ImageEnhance.Sharpness(img_bright).enhance(1.0)
+        st.image(img_sharp, use_column_width=True)
+
+    with controls_col:
         st.subheader("Image Controls")
         x = st.slider("X Coordinate", 0, 500, 250)
         y = st.slider("Y Coordinate", 0, 500, 250)
@@ -47,14 +81,14 @@ if uploaded_files:
             brightness = st.slider("Brightness", 0.0, 5.0, 1.0)
             sharpness = st.slider("Sharpness", 0.0, 2.0, 1.0)
 
-    processed_col, actions_col = st.columns([3, 2])
+        if st.button("Apply Adjustments"):
+            img_zoomed = zoom_at(img, x, y, zoom)
+            img_contrast = ImageEnhance.Contrast(img_zoomed).enhance(contrast)
+            img_bright = ImageEnhance.Brightness(img_contrast).enhance(brightness)
+            img_sharp = ImageEnhance.Sharpness(img_bright).enhance(sharpness)
+            st.image(img_sharp, use_column_width=True, caption="Processed Image")
 
-    with processed_col:
-        img_zoomed = zoom_at(img, x, y, zoom)
-        img_contrast = ImageEnhance.Contrast(img_zoomed).enhance(contrast)
-        img_bright = ImageEnhance.Brightness(img_contrast).enhance(brightness)
-        img_sharp = ImageEnhance.Sharpness(img_bright).enhance(sharpness)
-        st.image(img_sharp, caption="Processed Image", use_column_width=True)
+    actions_col, save_col = st.columns([2, 3])
 
     with actions_col:
         save_image = st.checkbox("Save Image")
@@ -88,3 +122,7 @@ if uploaded_files:
                 os.rename("saved_image_parameters.json", f"saved_image_parameters{file_ext}.json")
                 os.rename("saved_image_description.txt", f"saved_image_description{file_ext}.txt")
                 st.success("Files renamed successfully")
+
+    # Display Original Image Below Processed Image
+    st.markdown("### Original Image")
+    st.image(img, use_column_width=True)