572 lines
24 KiB
Python
572 lines
24 KiB
Python
# -*- coding: utf-8 -*-
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"""
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Created on 29.10.2024, 09:00 hrs
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LC Controller measurement script
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@author: Serdar, adjusted by Lukas and Ryan
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"""
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############################################
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# Packages from Ryan
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import re
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import math
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import threading
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import pyvisa
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import time
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# from pyvisa import ResourceManager, constants
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# NOTE: KLCCommandLib64.py must be in the same folder as this script!
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try:
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from KLCCommandLib64 import *
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except OSError as ex:
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print("Warning:",ex)
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V_MAX = 25 # corresponds to the max RMS voltage of 25 V of KLC101 device
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############################################
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import AMC
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import csv
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import time
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import clr
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import sys
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import os, glob, string
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import spe2py as spe
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import spe_loader as sl
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import pandas as pd
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import time
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from System.IO import *
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from System import String
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import numpy as np
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import matplotlib.pyplot as plt
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import datetime
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from typing import Union
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# NOTE: this is possibly not needed, remove later
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#First choose your controller
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IP_AMC300 = "192.168.1.1"
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IP_AMC100 = "192.168.71.100"
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# IP = "192.168.1.1"
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IP = IP_AMC100
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# Import System.IO for saving and opening files
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from System.IO import *
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from System.Threading import AutoResetEvent
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# Import C compatible List and String
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from System import String
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from System.Collections.Generic import List
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# Add needed dll references
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sys.path.append(os.environ['LIGHTFIELD_ROOT'])
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sys.path.append(os.environ['LIGHTFIELD_ROOT']+"\\AddInViews")
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sys.path.append(r'C:\Program Files\Princeton Instruments\LightField\AddInViews') #I added them by hand -serdar
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sys.path.append(r'C:\Program Files\Princeton Instruments\LightField') #this one also
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clr.AddReference('PrincetonInstruments.LightFieldViewV5')
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clr.AddReference('PrincetonInstruments.LightField.AutomationV5')
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clr.AddReference('PrincetonInstruments.LightFieldAddInSupportServices')
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os.environ['LIGHTFIELD_ROOT'] = r'C:\Program Files\Princeton Instruments\LightField'
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# PI imports
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from PrincetonInstruments.LightField.Automation import Automation
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from PrincetonInstruments.LightField.AddIns import ExperimentSettings
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from PrincetonInstruments.LightField.AddIns import CameraSettings
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#from PrincetonInstruments.LightField.AddIns import DeviceType
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from PrincetonInstruments.LightField.AddIns import SpectrometerSettings
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from PrincetonInstruments.LightField.AddIns import RegionOfInterest
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######################################################################################################### code begins from here #############################################
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def set_custom_ROI():
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# Get device full dimensions
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dimensions = experiment.FullSensorRegion()
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regions = []
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# Add two ROI to regions
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regions.append(
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RegionOfInterest(
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int(dimensions.X), int(dimensions.Y),
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int(dimensions.Width), int(dimensions.Height//4), # Use // for integer division
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int(dimensions.XBinning), int(dimensions.Height//4)))
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# Set both ROI
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experiment.SetCustomRegions(regions)
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def experiment_completed(sender, event_args): #callback function which is hooked to event completed, this is the listener
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print("... Acquisition Complete!")
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acquireCompleted.Set() #set the event. This puts the autoresetevent false.(look at .NET library for furher info)
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def InitializerFilenameParams():
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experiment.SetValue(ExperimentSettings.FileNameGenerationAttachIncrement, False)
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experiment.SetValue(ExperimentSettings.FileNameGenerationIncrementNumber, 1.0)
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experiment.SetValue(ExperimentSettings.FileNameGenerationIncrementMinimumDigits, 2.0)
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experiment.SetValue(ExperimentSettings.FileNameGenerationAttachDate, False)
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experiment.SetValue(ExperimentSettings.FileNameGenerationAttachTime, False)
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def AcquireAndLock(name):
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print("Acquiring...", end = "")
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# name += 'Exp{0:06.2f}ms.CWL{1:07.2f}nm'.format(\
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# experiment.GetValue(CameraSettings.ShutterTimingExposureTime)\
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# ,experiment.GetValue(SpectrometerSettings.GratingCenterWavelength))
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experiment.SetValue(ExperimentSettings.FileNameGenerationBaseFileName, name) #this creates .spe file with the name
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experiment.Acquire() # this is an ashynrchronus func.
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acquireCompleted.WaitOne()
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def calculate_distance(x1, y1, x2, y2):
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return np.sqrt((x2 - x1)**2 + (y2 - y1)**2)
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def generate_scan_positions(center, range_val, resolution):
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positive_range = np.arange(center, center + range_val + resolution, resolution)
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return positive_range
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def save_as_csv(filename, position_x, position_y):
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file_existance = os.path.isfile(filename)
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with open(filename, 'a', newline = '') as csvfile:
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writer = csv.writer(csvfile)
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if not file_existance:
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writer.writerow(['x_coordinates','y_coordinates'])
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writer.writerow([position_x, position_y])
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# def move_axis(axis, target):
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# """
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# This function moves an axis to the specified target and stop moving after it is in the really closed
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# vicinity (+- 25nm) of the target (listener hooked to it).
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# """
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# amc.move.setControlTargetPosition(axis, target)
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# amc.control.setControlMove(axis, True)
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# while not (target - 25) < amc.move.getPosition(axis) < (target + 25):
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# time.sleep(0.1)
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# time.sleep(0.15)
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# while not (target - 25) < amc.move.getPosition(axis) < (target + 25):
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# time.sleep(0.1)
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# amc.control.setControlMove(axis, False)
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# def move_xy(target_x, target_y): # moving in x and y direction closed to desired position
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# amc.move.setControlTargetPosition(0, target_x)
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# amc.control.setControlMove(0, True)
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# amc.move.setControlTargetPosition(1, target_y)
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# amc.control.setControlMove(1, True)
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# while not (target_x - 25) < amc.move.getPosition(0) < (target_x + 25) and (target_y - 25) < amc.move.getPosition(1) < (target_y + 25):
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# time.sleep(0.1)
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# time.sleep(0.15)
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# while not (target_x - 25) < amc.move.getPosition(0) < (target_x + 25) and (target_y - 25) < amc.move.getPosition(1) < (target_y + 25):
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# time.sleep(0.1)
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# amc.control.setControlOutput(0, False)
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# amc.control.setControlOutput(1, False)
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# intensity_data = [] # To store data from each scan
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# data_list = []
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# def move_scan_xy(range_x, range_y, resolution, Settings, baseFileName):
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# """
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# This function moves the positioners to scan the sample with desired ranges and resolution in 2 dimensions.
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# At the end it saves a csv file
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# Parameters
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# ----------
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# range_x : integer in nm. max value is 5um
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# Scan range in x direction.
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# range_y : integer in nm. max value is 5um
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# Scan range in y direction.
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# resolution : integer in nm.
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# Room temprature max res is 50nm. In cyrostat (4K) it is 10nm (check the Attocube manual)
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# baseFileName: string. At the end the saved file will be: baseFileName_scan_data.csv and it will be saved to the current directory
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# Returns
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# -------
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# None.
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# """
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# start_time = time.time()
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# axis_x = 0 #first axis
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# axis_y = 1 #second axis
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# center_x = amc.move.getPosition(axis_x)
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# center_y = amc.move.getPosition(axis_y)
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# # #check if the intput range is reasonable
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# # if amc.move.getPosition(axis_x) + range_x >= 5000 or amc.move.getPosition(axis_x)- range_x <= 0 or amc.move.getPosition(axis_y) + range_y >=5000 or amc.move.getPosition(axis_y) - range_y <= 5000 :
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# # print("scan range is out of range!")
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# # return
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# # +- range from current positions for x and y directions
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# array_x = generate_scan_positions(center_x, range_x, resolution)
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# array_y = generate_scan_positions(center_y, range_y, resolution)
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# total_points = len(array_x)*len(array_y)
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# len_y = len(array_y)
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# intensity_data = [] # To store data from each scan
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# data_list = []
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# cwd = os.getcwd() # save original directory
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# #This gives a directory, in which the script will save the spectrum of each spot as spe
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# #However, it will open the spectrum, convert it to txt, add it to the intensity_data and delete the spe file
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# temp_folder_path = "C:/Users/localadmin/Desktop/Users/Lukas/2024_02_08_Map_test"
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# #scanning loop
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# for i, x_positions in enumerate(array_x):
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# move_axis(axis_x, x_positions)
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# y = False
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# for j, y_positions in enumerate(array_y):
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# move_axis(axis_y, y_positions)
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# #each time when the positioner comes to the beggining of a new line
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# #this if will make the positioner wait a bit longer to really go to the target.
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# if y == False:
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# move_axis(axis_y, y_positions)
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# y = True
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# #we acquire with the LF
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# acquire_name_spe = f'{baseFileName}_X{x_positions}_Y{y_positions}'
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# AcquireAndLock(acquire_name_spe) #this creates a .spe file with the scan name.
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# #read the .spe file and get the data as loaded_files
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# cwd = os.getcwd() # save original directory
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# os.chdir(temp_folder_path) #change directory
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# loaded_files = sl.load_from_files([acquire_name_spe + '.spe']) # get the .spe file as a variable
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# os.chdir(cwd) # go back to original directory
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# # Delete the created .spe file from acquiring after getting necessary info
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# spe_file_path = os.path.join(temp_folder_path, acquire_name_spe + '.spe')
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# os.remove(spe_file_path)
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# distance = calculate_distance(x_positions, y_positions,amc.move.getPosition(axis_x), amc.move.getPosition(axis_y))
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# points_left = total_points - (i * len_y + (j+1)) + 1
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# print('Points left in the scan: ', points_left)
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# #append the intensity data as it is (so after every #of_wl_points, the spectrum of the next point begins)
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# intensity_data.append(loaded_files.data[0][0][0])
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# data_list.append({
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# 'position_x': x_positions,
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# 'position_y': y_positions,
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# 'actual_x': amc.move.getPosition(axis_x),
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# 'actual_y': amc.move.getPosition(axis_y),
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# 'distance': distance,
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# })
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# #moves back to starting position
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# move_axis(axis_x, center_x)
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# move_axis(axis_y, center_y)
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# #prints total time the mapping lasted
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# end_time = time.time()
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# elapsed_time = (end_time - start_time) / 60
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# print('Scan time: ', elapsed_time, 'minutes')
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# # df = pd.DataFrame(data_list)
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# #save intensity & WL data as .txt
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# os.chdir('C:/Users/localadmin/Desktop/Users/Lukas')
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# # creates new folder for MAP data
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# new_folder_name = "Test_Map_" + f"{datetime.datetime.now().strftime('%Y_%m_%d_%H.%M')}"
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# os.mkdir(new_folder_name)
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# # Here the things will be saved in a new folder under user Lukas !
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# # IMPORTANT last / has to be there, otherwise data cannot be saved and will be lost!!!!!!!!!!!!!!!!
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# os.chdir('C:/Users/localadmin/Desktop/Users/Lukas/'+ new_folder_name)
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# intensity_data = np.array(intensity_data)
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# np.savetxt(Settings + str(center_x) + '_' + str(center_y) + experiment_name +'.txt', intensity_data)
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# wl = np.array(loaded_files.wavelength)
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# np.savetxt("Wavelength.txt", wl)
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################################################################# RYAN'S FUNCTIONS HERE ##########################################################################################
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def polar_to_cartesian(radius, start_angle, end_angle, step_size, clockwise=True):
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# TODO: DOCS
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"""Creates a list of discrete cartesian coordinates (x,y), given the radius, start- and end angles, the angle step size, and the direction of rotation.
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Function then returns a list of two lists: list of angles and list of cartesian coordinates (x,y coordinates in a tuple).
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Args:
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radius (_type_): _description_
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start_angle (_type_): _description_
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end_angle (_type_): _description_
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step_size (_type_): _description_
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clockwise (bool, optional): _description_. Defaults to True.
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Returns:
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_type_: _description_
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""" """"""
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# Initialize lists to hold angles and (x, y) pairs
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angles = []
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coordinates = []
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# Normalize angles to the range [0, 360)
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start_angle = start_angle % 360
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end_angle = end_angle % 360
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if clockwise:
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# Clockwise rotation
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current_angle = start_angle
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while True:
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# Append the current angle to the angles list
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angles.append(current_angle % 360)
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# Convert the current angle to radians
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current_angle_rad = math.radians(current_angle % 360)
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# Convert polar to Cartesian coordinates
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x = radius * math.cos(current_angle_rad)
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y = radius * math.sin(current_angle_rad)
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# Append the (x, y) pair to the list
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coordinates.append((x, y))
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# Check if we've reached the end_angle (handling wrap-around) (current_angle - step_size) % 360 == end_angle or
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if current_angle % 360 == end_angle:
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break
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# Decrement the current angle by the step size
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current_angle -= step_size
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if current_angle < 0:
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current_angle += 360
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else:
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# Counterclockwise rotation
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current_angle = start_angle
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while True:
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# Append the current angle to the angles list
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angles.append(current_angle % 360)
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# Convert the current angle to radians
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current_angle_rad = math.radians(current_angle % 360)
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# Convert polar to Cartesian coordinates
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x = radius * math.cos(current_angle_rad)
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y = radius * math.sin(current_angle_rad)
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# Append the (x, y) pair to the list
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coordinates.append((x, y))
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# Check if we've reached the end_angle (handling wrap-around) (current_angle + step_size) % 360 == end_angle or
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if current_angle % 360 == end_angle:
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break
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# Increment the current angle by the step size
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current_angle += step_size
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if current_angle >= 360:
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current_angle -= 360
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return [angles, coordinates]
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################################################################# DASHA'S CODE HERE ##############################################################################################
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# TODO: modify b field scan script for Dasha, to be used for the KLC controller
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# NOTE: all voltage values are the RMS values, and have the unit V
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def LCR_scan_func(handle:int, init_voltage:float, final_voltage:float,
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res:float, base_file_name='',
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reversescan_bool=False, zerowhenfin_bool=False, loopscan_bool=False)->None:
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# TODO: docstring
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"""_summary_
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Args:
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handle (int): _description_
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init_voltage (float): _description_
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final_voltage (float): _description_
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res (float): _description_
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base_file_name (str, optional): _description_. Defaults to ''.
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reversescan_bool (bool, optional): _description_. Defaults to False.
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zerowhenfin_bool (bool, optional): _description_. Defaults to False.
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loopscan_bool (bool, optional): _description_. Defaults to False.
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"""
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def pyramid_list(lst) -> Union[list, np.ndarray]:
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"""reverses the list and removes the first element of reversed list. Then, this is appended to
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the end of the original list and returned as the 'pyramid' list.
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Args:
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lst (list or np.ndarray):
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Raises:
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TypeError: if the input object isn't a list or np.ndarray
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Returns:
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Union[list, np.ndarray]: the pyramid list
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""" ''''''
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if isinstance(lst, list):
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return lst + lst[-2::-1]
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elif isinstance(lst, np.ndarray):
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return np.append(lst, lst[-2::-1])
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else:
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raise TypeError('Please input a list!')
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# defines the folder, in which the data from the spectrometer is temporarily stored in
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temp_folder_path = "C:/Users/localadmin/Desktop/Users/Dasha/LCR_temp_dump_folder"
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if base_file_name =='':
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base_file_name = datetime.datetime.now().strftime('%Y_%m_%d_%H.%M')
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start_time = time.time() # start of the scan function
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# Check if the given start and/or end voltages are within the accepted limits
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if (init_voltage >= V_MAX):
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raise ValueError('Maximum device voltage exceeded! Please input a smaller initial voltage!')
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elif (end_voltage >= V_MAX):
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raise ValueError('Maximum device voltage exceeded! Please input a smaller final voltage!')
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elif (res >= V_MAX):
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raise ValueError('Entered step size exceeds 25 V! Please choose a smaller step size!')
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# creates list of voltage values to measure at, with given resolution, in V
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voltage_lst = np.arange(init_voltage, final_voltage + res, res)
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# TODO: remove the two lines below, probs not needed
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init_lim, subsequent_lim = 'LLIM', 'ULIM'
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init_sweep, subsequent_sweep = 'DOWN', 'UP'
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# if reverse scan, flips the direction of the scan
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if reversescan_bool:
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voltage_lst = voltage_lst[::-1]
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init_lim, subsequent_lim = subsequent_lim, init_lim
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init_sweep, subsequent_sweep = subsequent_sweep, init_sweep
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# creates the pyramid list of B vals if one were to perform a hysteresis measurement
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if loopscan_bool:
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voltage_lst = pyramid_list(voltage_lst)
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total_points = len(voltage_lst)
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middle_index_voltage_lst = total_points // 2
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intensity_data = [] # To store data from each scan
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cwd = os.getcwd() # save original directory
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# TODO: edit the helpe_scan_func and scanning loop below, after this, the code should be complete!
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# NOTE: helper function for the scanning loop
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def helper_scan_func(idx, bval, instr=instr, init_lim=init_lim, init_sweep=init_sweep,
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subsequent_lim=subsequent_lim, subsequent_sweep=subsequent_sweep, sleep=5):
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if idx == 0: # for first iteration, sweep to one of the limits
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write_no_echo(instr, f'{init_lim} {bval*10}') # convert back to kG
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write_no_echo(instr, f'SWEEP {init_sweep}')
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else:
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write_no_echo(instr, f'{subsequent_lim} {bval*10}') # convert back to kG
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write_no_echo(instr, f'SWEEP {subsequent_sweep}')
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actual_bval = sep_num_from_units(query_no_echo(instr, 'IMAG?'))[0]*0.1 # convert kG to T
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print(f'Actual magnet strength: {actual_bval} T,', f'Target magnet strength: {bval} T')
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while abs(actual_bval - bval) > 0.0001:
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time.sleep(5) # little break
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actual_bval = sep_num_from_units(query_no_echo(instr, 'IMAG?'))[0]*0.1
|
|
# update the actual bval
|
|
print(f'Actual magnet strength: {actual_bval} T,', f'Target magnet strength: {bval} T')
|
|
|
|
#scanning loop
|
|
for i, bval in enumerate(voltage_lst):
|
|
|
|
if not loopscan_bool:
|
|
helper_scan_func(i, bval)
|
|
else:
|
|
if i <= middle_index_voltage_lst:
|
|
helper_scan_func(i, bval)
|
|
else:
|
|
helper_scan_func(i, bval, instr=instr, init_lim=subsequent_lim, init_sweep=subsequent_sweep,
|
|
subsequent_lim=init_lim, subsequent_sweep=init_sweep, sleep=5)
|
|
|
|
time.sleep(5)
|
|
# we acquire with the LF
|
|
acquire_name_spe = f'{base_file_name}_{bval}T'
|
|
AcquireAndLock(acquire_name_spe) #this creates a .spe file with the scan name.
|
|
|
|
# read the .spe file and get the data as loaded_files
|
|
cwd = os.getcwd() # save original directory
|
|
os.chdir(temp_folder_path) #change directory
|
|
loaded_files = sl.load_from_files([acquire_name_spe + '.spe']) # get the .spe file as a variable
|
|
os.chdir(cwd) # go back to original directory
|
|
|
|
# Delete the created .spe file from acquiring after getting necessary info
|
|
spe_file_path = os.path.join(temp_folder_path, acquire_name_spe + '.spe')
|
|
os.remove(spe_file_path)
|
|
|
|
points_left = total_points - i - 1
|
|
print('Points left in the scan: ', points_left)
|
|
|
|
#append the intensity data as it is (so after every #of_wl_points, the spectrum of the next point begins)
|
|
intensity_data.append(loaded_files.data[0][0][0])
|
|
|
|
#prints total time the mapping lasted
|
|
end_time = time.time()
|
|
elapsed_time = (end_time - start_time) / 60
|
|
print('Scan time: ', elapsed_time, 'minutes')
|
|
|
|
write_no_echo(instr, f'LLIM {instr_bsettings[1][0]*10};ULIM {instr_bsettings[2][0]*10}') # reset the initial limits of the device after the scan
|
|
|
|
if zerowhenfin_bool:
|
|
write_no_echo(instr, 'SWEEP ZERO') # if switched on, discharges the magnet after performing the measurement loop above
|
|
|
|
#save intensity & WL data as .txt
|
|
os.chdir('C:/Users/localadmin/Desktop/Users/Lukas')
|
|
# creates new folder for MAP data
|
|
new_folder_name = "Test_Map_" + f"{datetime.datetime.now().strftime('%Y_%m_%d_%H.%M')}"
|
|
os.mkdir(new_folder_name)
|
|
# Here the things will be saved in a new folder under user Lukas !
|
|
# IMPORTANT last / has to be there, otherwise data cannot be saved and will be lost!!!!!!!!!!!!!!!!
|
|
os.chdir('C:/Users/localadmin/Desktop/Users/Lukas/'+ new_folder_name)
|
|
|
|
intensity_data = np.array(intensity_data)
|
|
np.savetxt(base_file_name + '.txt', intensity_data)
|
|
|
|
wl = np.array(loaded_files.wavelength)
|
|
np.savetxt("Wavelength.txt", wl)
|
|
|
|
|
|
################################################################# END OF FUNCTION DEFS ###########################################################################################
|
|
|
|
# NOTE: RYAN INTRODUCED SOME FUNCTIONS HERE TO PERFORM THE SCAN
|
|
try:
|
|
# initialise KLC connection
|
|
# Find devices
|
|
devs = klcListDevices()
|
|
print("Found devices:",devs,"\n")
|
|
if(len(devs)<=0):
|
|
print('There is no device connected')
|
|
sys.exit()
|
|
klc = devs[0] # devs is a list of 2-element lists, in which the serial-nr. and device name are contained
|
|
serialnumber = klc[0]
|
|
|
|
# Connect device
|
|
KLC_handle = klcOpen(serialnumber, 115200, 3) # baud rate and timeout(in s)
|
|
if(KLC_handle<0):
|
|
print("open ", serialnumber, " failed")
|
|
sys.exit()
|
|
if(klcIsOpen(serialnumber) == 0):
|
|
print("klcIsOpen failed")
|
|
klcClose(KLC_handle)
|
|
sys.exit()
|
|
print("Connected to serial number ", serialnumber)
|
|
|
|
# TODO: remove this commented code block later
|
|
# Initialise PYVISA ResourceManager
|
|
# rm = pyvisa.ResourceManager()
|
|
# print(rm.list_resources())
|
|
# 'ASRL8::INSTR' for dual power supply, 'ASRL9::INSTR' for single power supply (online PC)
|
|
# 'ASRL10::INSTR' for dual power supply, 'ASRL12::INSTR' for single power supply (offline PC)
|
|
|
|
auto = Automation(True, List[String]())
|
|
experiment = auto.LightFieldApplication.Experiment
|
|
acquireCompleted = AutoResetEvent(False)
|
|
|
|
experiment.Load("Alison_08.07.24") # NOTE: this should be the
|
|
experiment.ExperimentCompleted += experiment_completed # we are hooking a listener.
|
|
# experiment.SetValue(SpectrometerSettings.GratingSelected, '[750nm,1200][0][0]')
|
|
# InitializerFilenameParams()
|
|
|
|
# ENTER START AND END VOLTAGES, AS WELL AS VOLTAGE STEP SIZE HERE
|
|
start_voltage = 0
|
|
end_voltage = 0.5
|
|
voltage_stepsize = 0.25
|
|
|
|
#Here you can specify the filename of the map e.g. put experiment type, exposure time, used filters, etc....
|
|
experiment_settings = 'PL_SP_700_LP_700_HeNe_52muW_exp_2s_Start_'
|
|
#The program adds the range of the scan as well as the resolution and the date and time of the measurement
|
|
experiment_name = f"{start_voltage}V_to_{end_voltage}V_{voltage_stepsize}V_{datetime.datetime.now().strftime('%Y_%m_%d_%H%M')}"
|
|
|
|
# TODO: insert LCR rotation scan function here
|
|
|
|
# use this reference code for the LCR scan later on
|
|
# sweep_b_val(powerbox_dualsupply, set_llim_bval, set_ulim_bval, set_res_bval, 'z-axis',
|
|
# experiment_settings, base_file_name=experiment_name, zerowhenfin_bool=True, reversescan_bool=False)
|
|
|
|
|
|
except Exception() as e:
|
|
print(e)
|
|
finally:
|
|
#close connection to device
|
|
klcClose(KLC_handle)
|
|
print("Connection closed") |