Spaces:
Sleeping
Sleeping
File size: 4,870 Bytes
3318510 e9f7fd2 affc586 3eb11cb e665ab2 acda587 97f584b 22773d6 5253012 94e3d42 84f200a 807f381 9eed4fa b531d2e d525e10 b531d2e d525e10 b531d2e b3c4662 b531d2e 9eed4fa 7a0b4da 3281da3 0f46724 60f23bc 9cfe6a8 807f381 057ede6 807f381 d17c251 b531d2e 807f381 b531d2e 9eed4fa 36ee72b 119543a |
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 |
import streamlit as st
import pydicom
import matplotlib.pyplot as plt
import zipfile
import os
import subprocess
from datetime import datetime
import shutil
import moviepy.video.io.ImageSequenceClip
from io import BytesIO
from tkinter import Tcl
from PIL import Image
subprocess_executed = False
# Upload a ZIP file containing DICOM slices
st.write("Upload a ZIP file containing DICOM slices")
uploaded_zip_file = st.file_uploader("Upload a .zip file", type=["zip"])
@st.cache_resource
def install_dependencies():
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.")
install_script_executed = True
except subprocess.CalledProcessError as e:
print(f"Error while running the script: {e}")
@st.cache_resource
def run_inference():
command = "chmod +x inference.sh"
try:
subprocess.run(command, shell=True, check=True)
print("Script 'inference.sh' has been made executable.")
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 running the script: {e}")
if uploaded_zip_file is not None:
try:
install_dependencies()
temp_dir = "/home/user/app/C2C/temp_dicom_dir"
os.makedirs(temp_dir, exist_ok=True)
full_path = os.path.abspath(temp_dir)
st.success("Zip file uploaded successfully")
with zipfile.ZipFile(uploaded_zip_file, "r") as zip_ref:
zip_ref.extractall(temp_dir)
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
except Exception as e:
st.error(f"Error: {str(e)}")
if st.button("Analyze"):
st.success("Analysis started (expected time: 5 mins)")
run_inference()
# 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
subdirectory_path = os.path.join(outputs_directory, first_subdirectory)
temp_dicom_dir_path = os.path.join(subdirectory_path, "temp_dicom_dir")
# Get a list of subdirectories inside the 'temp_dicom_dir' directory
dicom_subdirectories = [subdir for subdir in os.listdir(temp_dicom_dir_path)
if os.path.isdir(os.path.join(temp_dicom_dir_path, subdir))]
# Use the first (or only) subdirectory inside 'temp_dicom_dir', or None if there are none
first_dicom_subdirectory = dicom_subdirectories[0] if dicom_subdirectories else None
if first_dicom_subdirectory:
video_path = os.path.join(temp_dicom_dir_path, first_dicom_subdirectory, "images/summary/aaa.mp4")
image_path = os.path.join(temp_dicom_dir_path, first_dicom_subdirectory, "images/summary/diameter_graph.png")
largest_slice = os.path.join(temp_dicom_dir_path, first_dicom_subdirectory, "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)
else:
st.warning("No subdirectories or folders found inside 'temp_dicom_dir'.")
else:
st.warning("No subdirectories or folders found inside the 'outputs' directory.")
|