app.py

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

# Define the list of commands, including "echo" to simulate Enter keypress
commands = [
    "git clone https://github.com/StanfordMIMI/Comp2Comp/",
    "cd Comp2Comp",
    "pip install -e ."
]

for command in commands:
    try:
        subprocess.run(command, shell=True, check=True)
    except subprocess.CalledProcessError as e:
        print(f"Error running the command: {e}")


# Run the commands
for command in commands:
    try:
        subprocess.run(command, shell=True, check=True, text=True)
    except subprocess.CalledProcessError as e:
        print(f"Error running the command: {e}")

# Streamlit app title
st.title("DICOM Image Viewer")

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

# Function to read and display the DICOM image
@st.cache(suppress_st_warning=True, show_spinner=False)
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

if uploaded_zip_file is not None:
    try:
        # Create a temporary directory to unzip the files
        temp_dir = "temp_dicom_dir"
        os.makedirs(temp_dir, exist_ok=True)

        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)}")
    finally:
        # Clean up by removing the temporary directory
        for file in dicom_files:
            os.remove(file)
        os.rmdir(temp_dir)

st.write("Upload a ZIP file containing DICOM slices to view the images.")