app.py

import streamlit as st
import pydicom
import matplotlib.pyplot as plt
import zipfile
import os
import subprocess
from datetime import datetime
import shutil

# Flag to track if subprocess commands have been executed
subprocess_executed = False

# Streamlit app title
st.markdown("<h1 style='text-align: center;'>A<sup>4</sup></h1>", unsafe_allow_html=True)
st.subheader("Automated AAA Diameter Measurements")

# Upload a ZIP file containing DICOM slices
uploaded_zip_file = st.file_uploader("Upload a ZIP file containing DICOM slices", type=["zip"])
st.write("Upload a ZIP file containing DICOM slices to view the images.")

# Function to read and display the DICOM image
def display_dicom_image(selected_slice, dicom_files):
    dicom_data = pydicom.dcmread(dicom_files[selected_slice])

    # Display the DICOM image
    plt.imshow(dicom_data.pixel_array, cmap=plt.cm.bone)
    plt.axis("off")
    plt.title("DICOM Image")
    plt.tight_layout()
    return plt

def execute_command_with_progress(command, description):
    st.write(description)
    process = subprocess.Popen(
        command,
        shell=True,
        stdout=subprocess.PIPE,
        stderr=subprocess.STDOUT,
        universal_newlines=True,
        bufsize=1,
    )

    for line in process.stdout:
        st.text(line)  # Display the output
        # Assuming that the script provides a numeric progress value
        try:
            progress = float(line.strip())  # Extract a numeric progress value
            st.progress(progress)
        except ValueError:
            pass

    process.wait()
    st.write(f"{description} has finished.")

if uploaded_zip_file is not None:
    try:
        # Create a temporary directory to unzip the files
        temp_dir = "/home/user/app/C2C/temp_dicom_dir"
        
        os.makedirs(temp_dir, exist_ok=True)
        full_path = os.path.abspath(temp_dir)
        
        with zipfile.ZipFile(uploaded_zip_file, "r") as zip_ref:
            zip_ref.extractall(temp_dir)

        # Get a list of DICOM files in the directory
        dicom_files = [os.path.join(temp_dir, f) for f in os.listdir(temp_dir) if f.endswith(".dcm")]
        dicom_files.sort()  # Sort the files

        if len(dicom_files) == 0:
            st.error("No DICOM files found in the ZIP archive.")
        else:
            # Display a slider for selecting the slice
            selected_slice = st.slider("Select a slice", 0, len(dicom_files) - 1, 0)

            # Display the DICOM image using the cached function
            plt = display_dicom_image(selected_slice, dicom_files)
            st.pyplot(plt)

    except Exception as e:
        st.error(f"Error: {str(e)}")

if st.button("Analyze"):

    command = "chmod +x install.sh"
    try:
        subprocess.run(command, shell=True, check=True)
        print("Script 'install.sh' has been made executable.")
    except subprocess.CalledProcessError as e:
        print(f"Error while making the script executable: {e}")

    command = "./install.sh"
    try:
        subprocess.run(command, shell=True, check=True)
        print("Script 'install.sh' has started running.")
    except subprocess.CalledProcessError as e:
        print(f"Error while running the script: {e}")
            
    temp_dir = "/home/user/app/C2C/temp_dicom_dir"
        
    os.makedirs(temp_dir, exist_ok=True)
    full_path = os.path.abspath(temp_dir)

    try:
        execute_command_with_progress(command, "Installing required C2C packages")
    except subprocess.CalledProcessError as e:
        st.error(f"Error while making the script executable: {e}")




    command = "chmod +x inference.sh"
    
    try:
        subprocess.run(command, shell=True, check=True)
        print("Script 'inference.sh' has started running.")
    except subprocess.CalledProcessError as e:
        print(f"Error while making the script executable: {e}")

    command = "./inference.sh"

    try:
        subprocess.run(command, shell=True, check=True)
        print("Script 'inference.sh' has started running.")
    except subprocess.CalledProcessError as e:
        print(f"Error while making the script executable: {e}")

    # Set the flag to indicate that subprocess commands have been executed
    subprocess_executed = True

    # Assuming the 'outputs' directory is located at "/home/user/app/C2C/comp2comp/outputs"
    outputs_directory = "/home/user/app/C2C/outputs"
    
    # Get a list of subdirectories inside the 'outputs' directory
    subdirectories = [subdir for subdir in os.listdir(outputs_directory)
          if os.path.isdir(os.path.join(outputs_directory, subdir))]

    # Use the first (or only) subdirectory, or None if there are no subdirectories
    first_subdirectory = subdirectories[0] if subdirectories else None
    
    if first_subdirectory:
        # Construct the paths to the video and image files inside the first subdirectory
        video_path = os.path.join(outputs_directory, first_subdirectory, "temp_dicom_dir/images/summary/aaa.mp4")
        image_path = os.path.join(outputs_directory, first_subdirectory, "temp_dicom_dir/images/summary/diameter_graph.png")
        largest_slice = os.path.join(outputs_directory, first_subdirectory, "temp_dicom_dir/images/summary/out.png")
    
        if os.path.exists(largest_slice):
            st.title("Largest Slice")
            st.image(largest_slice, use_column_width=True)
        
        # Display the video generated by the inference script
        if os.path.exists(video_path):
            st.title("Video")
            st.video(video_path, format="video/mp4")
        
        # Display the image generated by the inference script
        if os.path.exists(image_path):
            st.title("Diameter Graph")
            st.image(image_path, use_column_width=True)




    
    # finally:
    #     shutil.rmtree(temp_dir)