def __init__(self):
# Create the LightField Application (true for visible)
# The 2nd parameter forces LF to load with no experiment
auto = Automation(True, List[String]())
# Get experiment object
self.experiment = auto.LightFieldApplication.Experiment
def on_activate(self):
""" Activate module.
This method needs to set ip the CLR to Python binding and start Lightfield.
"""
lfpath = os.environ['LIGHTFIELD_ROOT']
lfaddinpath = os.path.join(os.environ['LIGHTFIELD_ROOT'], 'AddInViews')
sys.path.append(lfpath)
sys.path.append(lfaddinpath)
ref1 = clr.AddReference('PrincetonInstruments.LightFieldViewV4')
ref2 = clr.AddReference('PrincetonInstruments.LightField.AutomationV4')
#print(dir(ref), '\n\n')
#ref.LoadFrom(ref.Location)
verbose = list(clr.ListAssemblies(True))
short = list(clr.ListAssemblies(False))
#for i in short:
# print('ASSEMBLY:', i)
#for i in verbose:
# print('ASS:', i)
#for i in ref2.Modules:
# print('ASS Module:', i)
#for i in ref2.ExportedTypes:
# print('ASS Exported type:', i)
try:
for i in ref2.DefinedTypes:
print('ASS Defined type:', i)
except System.Reflection.ReflectionTypeLoadException as e:
for i in e.LoaderExceptions:
print('EXC:', i.Message)
print('ASS Entry point:', ref2.EntryPoint)
print('ASS is Dynamic:', ref2.IsDynamic)
from PrincetonInstruments.LightField.Automation import Automation
import PrincetonInstruments.LightField.AddIns as ai
lst = col.List[System.String]()
self.au = Automation(True, lst)
self.app = self.au.LightFieldApplication
self.exp = self.app.Experiment
self.exp.ExperimentCompleted += EventHandler(
self.setAcquisitionComplete)
self.exp.ImageDataSetReceived += EventHandler(self.frameCallback)
self.exp.SettingChanged += EventHandler(self.settingChangedCallback)
self.app.UserInteractionManager.SuppressUserInteraction = True
self.prevExperimentName = self.exp.Name
print('Prev Exp', self.prevExperimentName)
#self.getExperimentList()
#self.openExperiment(name)
self.lastframe = list()
def __init__(self):
logger.debug('Here we go')
self.auto = Automation(True, List[String]())
self.application = self.auto.LightFieldApplication
self.experiment = self.application.Experiment
self.file_manager = self.application.FileManager
self.acquireCompleted = AutoResetEvent(False)
self.dataset = Dataset()
time.sleep(3)
logger.debug('Loaded')
def init_device(self):
Device.init_device(self)
self.set_change_event('image', True, False)
self.set_state(DevState.INIT)
self.lf = Automation(True, List[String]()) # starts LF instance
self.exp = self.lf.LightFieldApplication.Experiment
self.device = self.get_camera_device()
if self.device is not None:
self.set_state(DevState.ON)
name, model, sn, shape = self.get_sensor_info()
print('Connected:', model, name, sn, file=self.log_info)
self._image = np.zeros(shape)
self._accum = 0
self.register_events()
self.setup_file_save()
else:
print('No camera found.', file=self.log_error)
self.set_state(DevState.FAULT)
def capture_photo(begin,exp_no):
global device_found
global experiment
global save_file
global file_manager
if begin=="start":
def save_file(filename):
# Set the base file name
experiment.SetValue(
ExperimentSettings.FileNameGenerationBaseFileName,
Path.GetFileName(filename))
# Option to Increment, set to false will not increment
experiment.SetValue(
ExperimentSettings.FileNameGenerationAttachIncrement,
True)
# Option to add date
experiment.SetValue(
ExperimentSettings.FileNameGenerationAttachDate,
True)
# Option to add time
experiment.SetValue(
ExperimentSettings.FileNameGenerationAttachTime,
True)
def device_found():
# Find connected device
for device in experiment.ExperimentDevices:
if (device.Type == DeviceType.Camera):
return True
# If connected device is not a camera inform the user
print("Camera not found. Please add a camera and try again.")
return False
# Create the LightField Application (true for visible)
# The 2nd parameter forces LF to load with no experiment
auto = Automation(True, List[String]())
application= auto.LightFieldApplication
experiment = auto.LightFieldApplication.Experiment
file_manager=application.FileManager
if begin=='adjust':
def set_value(setting, value):
# Check for existence before setting
# gain, adc rate, or adc quality
if experiment.Exists(setting):
experiment.SetValue(setting, value)
def experiment_completed(sender, event_args):
# print("Experiment Completed")
# Sets the state of the event to signaled,
# allowing one or more waiting threads to proceed.
acquireCompleted.Set()
from flipper import mirror
mirror('on')
# Check for device and inform user if one is needed
if (device_found()==True):
experiment.ExperimentCompleted += experiment_completed
# Check this location for saved spe after running
#print("Please Enter the Exposure Time:\n")
#x=int(input())
set_value(CameraSettings.ShutterTimingExposureTime,1000)
#print("Please Enter the Number of Frames")
#y=int(input())
n=3
experiment.SetValue(ExperimentSettings.AcquisitionFramesToStore,n)
for k in range(1,2):
if k==1:
experiment.SetValue(SpectrometerSettings.GratingCenterWavelength,578.1351880026082)
elif k==2:
experiment.SetValue(SpectrometerSettings.GratingCenterWavelength,621.2340604418703)
_file_name = "case"
# Pass location of saved file
save_file(_file_name)
# Acquire image
experiment.Acquire()
time.sleep(5)
#directory="C:\\Users\\labuser\\Desktop\\data\\Raman\\Vivek\\2019-10-08"
directory="C:\\Users\\UWAdmin\\Desktop\\AIM-Lab-Automation-master\\AIM-Lab-Automation-master\\spes"
if( os.path.exists(directory)):
# print("\nFound the .spe file...")
print(" ")
# Returns all .spe files
files = glob.glob(directory +'/*.spe')
# Returns recently acquired .spe file
last_image_acquired = max(files, key=os.path.getctime)
try:
# Open file
file_name = file_manager.OpenFile(last_image_acquired, FileAccess.Read)
# Access image
file=file_name
imageData = file.GetFrame(0,0)
#here is a problem 11-18-2019
intensity_frame=np.zeros((n,1340))
# Get image data
buffer = imageData.GetData()
#buffer=imageData.GetDataBuffer()
# Print first 10 pixel intensities
for i in range(0,n):
imageData=file.GetFrame(0,i)
buffer=imageData.GetData()
for pixel in range(0,1340):
intensity_frame[i][pixel]=buffer[pixel]
file_name.Dispose()
except IOError:
print ("Error: can not find file or read data")
else:
# print(".spe file not found...")
print(" ")
# print(String.Format("{0} {1}",
# "Image saved to",
# experiment.GetValue(
# ExperimentSettings.
# FileNameGenerationDirectory)))
mirror('off')
wl= experiment.SystemColumnCalibration
wavelength=np.zeros((1,1340))
for i in range(1340):wavelength[0,i]=wl[i]
#print(intensity_frame)
intensity=np.zeros((1,1340))
for i in range(1340):
x=0
for j in range(n):
x=x+intensity_frame[j][i]
x=x/n
intensity[0,i]=x
check_intensity=x
w=[]
inten=[]
for x in range(1340):
wavelength[0,x]=1e7*(1/532 - 1/wavelength[0,x])
w.append(wavelength[0,x])
inten.append(intensity[0,x])
import csv
ix=np.max(inten)
return ix
if begin=="bg":
def set_value(setting, value):
# Check for existence before setting
# gain, adc rate, or adc quality
if experiment.Exists(setting):
experiment.SetValue(setting, value)
def experiment_completed(sender, event_args):
# print("Experiment Completed")
# Sets the state of the event to signaled,
# allowing one or more waiting threads to proceed.
acquireCompleted.Set()
# Check for device and inform user if one is needed
if (device_found()==True):
experiment.ExperimentCompleted += experiment_completed
# Check this location for saved spe after running
#print("Please Enter the Exposure Time:\n")
#x=int(input())
set_value(CameraSettings.ShutterTimingExposureTime,3000)
#print("Please Enter the Number of Frames")
#y=int(input())
experiment.SetValue(ExperimentSettings.AcquisitionFramesToStore,10)
for k in range(1,3):
if k==1:
experiment.SetValue(SpectrometerSettings.GratingCenterWavelength,578.1351880026082)
elif k==2:
experiment.SetValue(SpectrometerSettings.GratingCenterWavelength,621.2340604418703)
_file_name = "case"
# Pass location of saved file
save_file(_file_name)
# Acquire image
experiment.Acquire()
time.sleep(35)
#directory="C:\\Users\\labuser\\Desktop\\data\\Raman\\Vivek\\2019-10-08"
directory="C:\\Users\\UWAdmin\\Desktop\\AIM-Lab-Automation-master\\AIM-Lab-Automation-master\\spes"
if( os.path.exists(directory)):
# print("\nFound the .spe file...")
print(" ")
# Returns all .spe files
files = glob.glob(directory +'/*.spe')
# Returns recently acquired .spe file
last_image_acquired = max(files, key=os.path.getctime)
try:
# Open file
file_name = file_manager.OpenFile(
last_image_acquired, FileAccess.Read)
# Access image
file=file_name
imageData = file.GetFrame(0,0)
#here is a problem 11-18-2019
n=5
intensity_frame=np.zeros((n,1340))
# Get image data
buffer = imageData.GetData()
#buffer=imageData.GetDataBuffer()
# Print first 10 pixel intensities
for i in range(0,n):
imageData=file.GetFrame(0,i)
buffer=imageData.GetData()
for pixel in range(0,1340):
intensity_frame[i][pixel]=buffer[pixel]
file_name.Dispose()
except IOError:
print ("Error: can not find file or read data")
else:
# print(".spe file not found...")
print(" ")
# print(String.Format("{0} {1}",
# "Image saved to",
# experiment.GetValue(
# ExperimentSettings.
# FileNameGenerationDirectory)))
wl= experiment.SystemColumnCalibration
wavelength=np.zeros((1,1340))
for i in range(1340):wavelength[0,i]=wl[i]
#print(intensity_frame)
intensity=np.zeros((1,1340))
for i in range(1340):
x=0
for j in range(n):
x=x+intensity_frame[j][i]
x=x/n
intensity[0,i]=x
check_intensity=x
w=[]
inten=[]
for x in range(1340):
wavelength[0,x]=1e7*(1/532 - 1/wavelength[0,x])
w.append(wavelength[0,x])
inten.append(intensity[0,x])
import csv
m="background"+str(k)+"D.csv"
with open(m, 'w', newline='') as f:
writer = csv.writer(f)
writer.writerow(["W", "I"])
writer.writerows(zip(w,inten))
if begin=="on":
def set_value(setting, value):
# Check for existence before setting
# gain, adc rate, or adc quality
if experiment.Exists(setting):
experiment.SetValue(setting, value)
def experiment_completed(sender, event_args):
# print("Experiment Completed")
# Sets the state of the event to signaled,
# allowing one or more waiting threads to proceed.
acquireCompleted.Set()
# Check for device and inform user if one is needed
if (device_found()==True):
experiment.ExperimentCompleted += experiment_completed
# Check this location for saved spe after running
#print("Please Enter the Exposure Time:\n")
#x=int(input())
set_value(CameraSettings.ShutterTimingExposureTime,3000)
#print("Please Enter the Number of Frames")
#y=int(input())
experiment.SetValue(ExperimentSettings.AcquisitionFramesToStore,10)
for k in range(1,3):
if k==1:
experiment.SetValue(SpectrometerSettings.GratingCenterWavelength,578.1351880026082)
elif k==2:
experiment.SetValue(SpectrometerSettings.GratingCenterWavelength,621.2340604418703)
_file_name = "case"
# Pass location of saved file
save_file(_file_name)
# Acquire image
experiment.Acquire()
time.sleep(35)
#directory="C:\\Users\\labuser\\Desktop\\data\\Raman\\Vivek\\2019-10-08"
directory="C:\\Users\\UWAdmin\\Desktop\\AIM-Lab-Automation-master\\AIM-Lab-Automation-master\\spes"
if( os.path.exists(directory)):
# print("\nFound the .spe file...")
print(" ")
# Returns all .spe files
files = glob.glob(directory +'/*.spe')
# Returns recently acquired .spe file
last_image_acquired = max(files, key=os.path.getctime)
try:
# Open file
file_name = file_manager.OpenFile(
last_image_acquired, FileAccess.Read)
# Access image
file=file_name
imageData = file.GetFrame(0,0)
#here is a problem 11-18-2019
n=10
intensity_frame=np.zeros((n,1340))
# Get image data
buffer = imageData.GetData()
#buffer=imageData.GetDataBuffer()
# Print first 10 pixel intensities
for i in range(0,n):
imageData=file.GetFrame(0,i)
buffer=imageData.GetData()
for pixel in range(0,1340):
intensity_frame[i][pixel]=buffer[pixel]
file_name.Dispose()
except IOError:
print ("Error: can not find file or read data")
else:
# print(".spe file not found...")
print(" ")
# print(String.Format("{0} {1}",
# "Image saved to",
# experiment.GetValue(
# ExperimentSettings.
# FileNameGenerationDirectory)))
wl= experiment.SystemColumnCalibration
wavelength=np.zeros((1,1340))
for i in range(1340):wavelength[0,i]=wl[i]
#print(intensity_frame)
intensity=np.zeros((1,1340))
for i in range(1340):
x=0
for j in range(n):
x=x+intensity_frame[j][i]
x=x/n
intensity[0,i]=x
check_intensity=x
w=[]
inten=[]
for x in range(1340):
wavelength[0,x]=1e7*(1/532 - 1/wavelength[0,x])
w.append(wavelength[0,x])
inten.append(intensity[0,x])
import csv
m="Point "+str(exp_no)+" foreground"+str(k)+"D.csv"
with open(m, 'w', newline='') as f:
writer = csv.writer(f)
writer.writerow(["W", "I"])
writer.writerows(zip(w,inten))
if check_intensity>=40e3:
print("experiment: ",exp_no, ":Patterning not done")
#,twoGD,twoD,G,WD,WG
elif check_intensity<40e3:
gdr=ration(1,2,exp_no)
return gdr
if begin=="first":
def set_value(setting, value):
# Check for existence before setting
# gain, adc rate, or adc quality
if experiment.Exists(setting):
experiment.SetValue(setting, value)
def experiment_completed(sender, event_args):
# print("Experiment Completed")
# Sets the state of the event to signaled,
# allowing one or more waiting threads to proceed.
acquireCompleted.Set()
# Check for device and inform user if one is needed
if (device_found()==True):
experiment.ExperimentCompleted += experiment_completed
# Check this location for saved spe after running
#print("Please Enter the Exposure Time:\n")
#x=int(input())
set_value(CameraSettings.ShutterTimingExposureTime,3000)
#print("Please Enter the Number of Frames")
#y=int(input())
experiment.SetValue(ExperimentSettings.AcquisitionFramesToStore,5)
for k in range(1,3):
if k==1:
experiment.SetValue(SpectrometerSettings.GratingCenterWavelength,578.1351880026082)
elif k==2:
experiment.SetValue(SpectrometerSettings.GratingCenterWavelength,621.2340604418703)
_file_name = "case"
# Pass location of saved file
save_file(_file_name)
# Acquire image
experiment.Acquire()
time.sleep(25)
#directory="C:\\Users\\labuser\\Desktop\\data\\Raman\\Vivek\\2019-10-08"
directory="C:\\Users\\UWAdmin\\Desktop\\AIM-Lab-Automation-master\\AIM-Lab-Automation-master\\spes"
if( os.path.exists(directory)):
# print("\nFound the .spe file...")
print(" ")
# Returns all .spe files
files = glob.glob(directory +'/*.spe')
# Returns recently acquired .spe file
last_image_acquired = max(files, key=os.path.getctime)
try:
# Open file
file_name = file_manager.OpenFile(
last_image_acquired, FileAccess.Read)
# Access image
file=file_name
imageData = file.GetFrame(0,0)
#here is a problem 11-18-2019
n=5
intensity_frame=np.zeros((n,1340))
# Get image data
buffer = imageData.GetData()
#buffer=imageData.GetDataBuffer()
# Print first 10 pixel intensities
for i in range(0,n):
imageData=file.GetFrame(0,i)
buffer=imageData.GetData()
for pixel in range(0,1340):
intensity_frame[i][pixel]=buffer[pixel]
file_name.Dispose()
except IOError:
print ("Error: can not find file or read data")
else:
# print(".spe file not found...")
print(" ")
# print(String.Format("{0} {1}",
# "Image saved to",
# experiment.GetValue(
# ExperimentSettings.
# FileNameGeneDirectory)))
wl= experiment.SystemColumnCalibration
wavelength=np.zeros((1,1340))
for i in range(1340):wavelength[0,i]=wl[i]
#print(intensity_frame)
intensity=np.zeros((1,1340))
for i in range(1340):
x=0
for j in range(n):
x=x+intensity_frame[j][i]
x=x/n
intensity[0,i]=x
check_intensity=x
w=[]
inten=[]
for x in range(1340):
wavelength[0,x]=1e7*(1/532 - 1/wavelength[0,x])
w.append(wavelength[0,x])
inten.append(intensity[0,x])
import csv
m="Before Point "+str(exp_no)+" foreground"+str(k)+"D.csv"
with open(m, 'w', newline='') as f:
writer = csv.writer(f)
writer.writerow(["W", "I"])
writer.writerows(zip(w,inten))
gd=ration2(1,2,exp_no)
return gd
def get_spectrometer_info():
print(
String.Format(
"{0} {1}", "Center Wave Length:",
str(
experiment.GetValue(
SpectrometerSettings.GratingCenterWavelength))))
print(
String.Format("{0} {1}", "Grating:",
str(experiment.GetValue(SpectrometerSettings.Grating))))
# Create the LightField Application (true for visible)
# The 2nd parameter forces LF to load with no experiment
auto = Automation(True, List[String]())
# Get experiment object
experiment = auto.LightFieldApplication.Experiment
# Find connected device
for device in experiment.ExperimentDevices:
if (device.IsConnected == True):
if (experiment.Exists(SpectrometerSettings.GratingCenterWavelength)):
# Set the spectrometer center wavelength
set_center_wavelength(5)
# Get spectrometer settings information
def __init__(self, expname):
self.auto = Automation(True, List[String]())
self.exp = self.auto.LightFieldApplication.Experiment
self.exp.Load(expname)
self.name = expname
def add_available_devices():
# Add first available device and return
for device in experiment.AvailableDevices:
print("\n\tAdding Device...")
experiment.Add(device)
return device
# create a C# compatible List of type String object
list1 = List[String]()
# add the command line option for an empty experiment
list1.Add("/empty")
# Create the LightField Application (true for visible)
auto = Automation(True, List[String](list1))
# Get experiment object
experiment = auto.LightFieldApplication.Experiment
# Check for device and inform user if one is needed
if (experiment.AvailableDevices.Count == 0):
print("Device not found. Please add a device and try again.")
else:
device = add_available_devices()
print("\n\tRemoving Device...")
# Removes the current device
experiment.Remove(device)