How to get autoscript running on the laptop?

[utkarshp1161]

Q: How to get Autoscript running on the laptop?

Steps

a) Download files

Download the files from here: Google Drive link (please request access by clicking)

b) Install dependencies

Then install the following packages:

pip install pillow numpy matplotlib colorama opencv_python lxml defusedxml h5py

c) Connect to VPN

Make sure you are connected to the UTK network

d) Run the script

Example Python script to test the connection and acquire an image:

import sys
import numpy as np
path = "path/to/above/downloaded/folder"  # e.g., "random_download/Autoscript/client_remote_code/"
sys.path.append(path)

from autoscript_tem_microscope_client import TemMicroscopeClient
from autoscript_tem_microscope_client.enumerations import *
from autoscript_tem_microscope_client.structures import *

import math
from matplotlib import pyplot as plt

# Connect to microscope
microscope = TemMicroscopeClient()
# microscope.connect("10.113.145.132")   # Alternative
ip = ""# address
port = # integer
microscope.connect(ip, port)      

# Acquire HAADF STEM image
image = microscope.acquisition.acquire_stem_image(DetectorType.HAADF, 128, 4e-6)

# Normalize data
img = image.data - np.min(image.data)
image_data = (255 * (img / np.max(img))).astype(np.uint8)

# Plot the image
plt.figure(figsize=(6, 6))
plt.imshow(image_data, cmap='gray')
plt.title('Acquired image')
plt.show()