297 lines
9.3 KiB
Python
297 lines
9.3 KiB
Python
import sys
|
|
import zmq
|
|
import numpy as np
|
|
import time
|
|
import pickle
|
|
import alignment
|
|
import matplotlib.pyplot as plt
|
|
import threading
|
|
import datetime
|
|
import copy
|
|
|
|
plt.rcParams['image.cmap'] = 'viridis'
|
|
|
|
def histVec(v,oversample=1):
|
|
v = np.atleast_1d(v)
|
|
v = np.unique(v)
|
|
vd = np.diff(v)
|
|
vd = np.hstack([vd[0],vd])
|
|
#vv = np.hstack([v-vd/2,v[-1]+vd[-1]/2])
|
|
vv = np.hstack([v-vd/2.,v[-1]+vd[-1]/2.])
|
|
if oversample>1:
|
|
vvo = []
|
|
for i in range(len(vv)-1):
|
|
vvo.append(np.linspace(vv[i],vv[i+1],oversample+1)[:-1])
|
|
vvo.append(vv[-1])
|
|
vv = np.array(np.hstack(vvo))
|
|
return vv
|
|
|
|
def subtractBkg(imgs,nPix=100,dKtype='corners'):
|
|
""" Opals tend to have different backgroud for every quadrant """
|
|
if dKtype is 'corners':
|
|
if imgs.ndim == 2: imgs = imgs[np.newaxis,:]
|
|
imgs = imgs.astype(np.float)
|
|
q1 = imgs[:,:nPix,:nPix].mean(-1).mean(-1)
|
|
imgs[:,:512,:512]-=q1[:,np.newaxis,np.newaxis]
|
|
q2 = imgs[:,:nPix,-nPix:].mean(-1).mean(-1)
|
|
imgs[:,:512,-512:]-=q2[:,np.newaxis,np.newaxis]
|
|
q3 = imgs[:,-nPix:,-nPix:].mean(-1).mean(-1)
|
|
imgs[:,-512:,-512:]-=q3[:,np.newaxis,np.newaxis]
|
|
q4 = imgs[:,-nPix:,:nPix].mean(-1).mean(-1)
|
|
imgs[:,-512:,:512]-=q4[:,np.newaxis,np.newaxis]
|
|
elif dKtype is 'stripes':
|
|
if imgs.ndim == 2: imgs = imgs[np.newaxis,:]
|
|
imgs = imgs.astype(np.float)
|
|
s1 = imgs[:,:nPix,:].mean(-2)
|
|
|
|
|
|
|
|
|
|
return np.squeeze(imgs)
|
|
|
|
def getData():
|
|
t0 = time.time()
|
|
context = zmq.Context()
|
|
socket = context.socket(zmq.REQ)
|
|
socket.connect('tcp://daq-xpp-mon06:12322')
|
|
#socket.setsockopt(zmq.SUBSCRIBE, b'')
|
|
while True:
|
|
socket.send(b"Request")
|
|
ret = socket.recv()
|
|
ret = pickle.loads(ret, encoding='latin1')
|
|
print('received',ret.keys(),time.time()-t0)
|
|
t0 = time.time()
|
|
|
|
if __name__ == "__main__":
|
|
getData()
|
|
|
|
class SpecHandler(object):
|
|
def __init__(self,connectString='tcp://daq-xpp-mon06:12322',spec1name='opal0',spec2name='opal1',roi=[0,1024,0,1024]):
|
|
self.connectString = connectString
|
|
self.spec1name = spec1name
|
|
self.spec2name = spec2name
|
|
self.dataCollector = []
|
|
#self.surveyplot = Surveyplot(spec1name=spec1name,spec2name=spec2name)
|
|
self.roi = roi
|
|
self.projsimple = ProjSimple(spec1name=spec1name,spec2name=spec2name,dataCollector=self.dataCollector)
|
|
self._rawContinuousTime = None
|
|
self.lastDat = None
|
|
self.openSocket()
|
|
#self.runningPlot = RunningPlot(self.dataCollector)
|
|
|
|
|
|
def openSocket(self):
|
|
context = zmq.Context()
|
|
self.context = context
|
|
self.socket = context.socket(zmq.REQ)
|
|
self.socket.connect(self.connectString)
|
|
#self.socket.setsockopt(zmq.SUBSCRIBE, b'')
|
|
|
|
def closeSocket(self):
|
|
del self.context
|
|
del self.socket
|
|
|
|
def getData(self):
|
|
self.socket.send(b"Request")
|
|
ret = self.socket.recv()
|
|
ret = pickle.loads(ret, encoding='latin1')
|
|
for sn in [self.spec1name,self.spec2name]:
|
|
ret[sn] = np.squeeze(alignment.subtractBkg(ret[sn], nPix=100, bkg_type='line'))
|
|
self.lastDat = ret
|
|
return ret
|
|
|
|
def getRaw(self,repoenConnection=False,doAlign=False,show=False,doFit=False,updateImg=True,updateProj=True,updateFom=True,flipit=False):
|
|
if doFit is True: doFit='iminuit'
|
|
|
|
|
|
if repoenConnection:
|
|
self.closeSocket()
|
|
self.openSocket()
|
|
dat = self.getData()
|
|
im1 = dat[self.spec1name]; im2 = dat[self.spec2name]
|
|
if doAlign:
|
|
#t = np.load("gui_align_transform_xppl3716.npy").item()
|
|
#if hasattr(self,'transformer'):
|
|
#algn = self.transformer
|
|
#else:
|
|
algn = alignment.loadAlignment('last_trafo.npy')
|
|
t = algn['transform']
|
|
roi1 = algn['roi1']
|
|
roi2 = algn['roi2']
|
|
im1 = im1[roi1];
|
|
if flipit:
|
|
im1 = im1[::-1]
|
|
im2 = im2[roi2]
|
|
|
|
r = alignment.doShot( im1,im2, t, show=show, doFit=doFit)
|
|
self.transformer = dict(transform=r.final_transform,roi1=roi1,roi2=roi2)
|
|
alignment.saveAlignment('last_trafo.npy',r.final_transform,roi1,roi2)
|
|
|
|
im1 = r.im1; im2 = r.im2
|
|
showDiff = True
|
|
showRatio = True
|
|
else:
|
|
showDiff = False
|
|
showRatio = False
|
|
if doAlign:
|
|
thres = 0.05
|
|
#im1[im1<thres*np.max(im1.ravel())] = np.nan
|
|
#im2[im2<thres*np.max(im2.ravel())] = np.nan
|
|
self.dataCollector.append(\
|
|
dict( time=datetime.datetime.now(),
|
|
fom=r.fom,
|
|
ratProj = np.nansum(im2/im1,axis=0),
|
|
im1Proj = np.nansum(im1,axis=0),
|
|
im2Proj = np.nansum(im2,axis=0)))
|
|
#if updateFom:
|
|
#self.runningPlot.updatePlot()
|
|
#if updateImg:
|
|
#self.surveyplot.plotImages(im1,im2,showDiff=showDiff,showRatio=showRatio)
|
|
#if updateProj:
|
|
self.projsimple.plotProfiles(im1,im2)
|
|
|
|
|
|
def alignFeatures(self):
|
|
im1 = copy.copy(self.lastDat[self.spec1name])
|
|
im2 = copy.copy(self.lastDat[self.spec2name])
|
|
roi1 = alignment.findRoi(im1)
|
|
roi2 = alignment.findRoi(im2)
|
|
|
|
tra = alignment.GuiAlignment(im1[roi1,:],im2[roi2,:],autostart=False)
|
|
self.transformer = dict(transform=tra.start(),roi1=roi1,roi2=roi2)
|
|
|
|
|
|
def getRawContinuuous(self,sleepTime,**kwargs):
|
|
self._rawContinuousTime = sleepTime
|
|
if not hasattr(self,'_rawContinuousThread'):
|
|
def upd():
|
|
while not self._rawContinuousTime is None:
|
|
self.getRaw(**kwargs)
|
|
plt.draw()
|
|
time.sleep(self._rawContinuousTime)
|
|
|
|
self._rawContinuousThread = threading.Thread(target=upd)
|
|
self._rawContinuousThread.start()
|
|
|
|
|
|
|
|
class Surveyplot(object):
|
|
def __init__(self,spec1name='spec1',spec2name='spec2'):
|
|
self.fig,self.axs = plt.subplots(4,1,sharex=True,sharey=True)
|
|
self.axs[0].set_title(spec1name)
|
|
self.axs[1].set_title(spec2name)
|
|
self.axs[2].set_title("Difference")
|
|
self.axs[3].set_title("Ratio")
|
|
|
|
def plotImages(self,img1,img2,showDiff=False,showRatio=False):
|
|
if hasattr(self,'i1'):
|
|
self.i1.set_data(img1)
|
|
else:
|
|
self.i1 = self.axs[0].imshow(img1,origin='lower',interpolation='none')
|
|
if hasattr(self,'i2'):
|
|
self.i2.set_data(img2)
|
|
else:
|
|
self.i2 = self.axs[1].imshow(img2,origin='lower',interpolation='none')
|
|
if showDiff:
|
|
tdiff = img2-img1
|
|
if hasattr(self,'idiff'):
|
|
self.idiff.set_data(tdiff)
|
|
else:
|
|
self.idiff = self.axs[2].imshow(tdiff,interpolation='none',origin='lower')
|
|
lms = np.percentile(tdiff,[30,70])
|
|
self.idiff.set_clim(lms)
|
|
if showRatio:
|
|
tratio = img2/img1
|
|
if hasattr(self,'iratio'):
|
|
self.iratio.set_data(tratio)
|
|
else:
|
|
self.iratio = self.axs[3].imshow(tratio,interpolation='none',origin='lower')
|
|
lms = np.percentile(tratio,[30,70])
|
|
self.iratio.set_clim(lms)
|
|
|
|
class ProjSimple(object):
|
|
def __init__(self,spec1name='spec1',spec2name='spec2',roi1=[0,1024,0,1024],roi2=[0,1024,0,1024],dataCollector=[]):
|
|
self.fig,self.axs = plt.subplots(2,1,sharex=True)
|
|
self.roi1 = roi1
|
|
self.roi2 = roi2
|
|
self.spec1name=spec1name
|
|
self.spec2name=spec2name
|
|
self.dataCollector = dataCollector
|
|
|
|
#def getROI(self,specNo):
|
|
def _roiit(self,img,roi):
|
|
return img[roi[0]:roi[1],roi[2]:roi[3]]
|
|
|
|
def plotProfiles(self,img1,img2):
|
|
prof1 = np.nansum(self._roiit(img1,self.roi1),0)
|
|
prof2 = np.nansum(self._roiit(img2,self.roi2),0)
|
|
if hasattr(self,'l1'):
|
|
self.l1.set_ydata(prof1)
|
|
else:
|
|
self.l1 = self.axs[0].plot(prof1,label=self.spec1name)[0]
|
|
if hasattr(self,'l2'):
|
|
self.l2.set_ydata(prof2)
|
|
else:
|
|
self.l2 = self.axs[0].plot(prof2,label=self.spec2name)[0]
|
|
plt.legend()
|
|
|
|
if hasattr(self,'lrat'):
|
|
self.lrat.set_ydata(prof2/prof1)
|
|
else:
|
|
self.lrat = self.axs[1].plot(prof2/prof1,'k',label='ratio')[0]
|
|
self.axs[1].set_ylim(0,2)
|
|
if len(self.dataCollector) > 0 :
|
|
im1Proj = np.asarray([i['im1Proj'] for i in self.dataCollector])
|
|
im2Proj = np.asarray([i['im2Proj'] for i in self.dataCollector])
|
|
#print(im1Proj.shape,im2Proj.shape)
|
|
ratAv = np.median(im2Proj[-10:,:],0)/np.median(im1Proj[-10:,:],0)
|
|
if hasattr(self,'lratAv'):
|
|
self.lratAv.set_ydata(ratAv)
|
|
else:
|
|
self.lratAv = self.axs[1].plot(ratAv,'r',label='ratio Avg')[0]
|
|
self.axs[1].set_ylim(0,2)
|
|
|
|
|
|
class RunningPlot(object):
|
|
def __init__(self,dataCollector):
|
|
self.dataCollector = dataCollector
|
|
self.fig,self.axs = plt.subplots(1,1)
|
|
|
|
def updatePlot(self):
|
|
if len(self.dataCollector)>0:
|
|
times = np.asarray(([i['time'] for i in self.dataCollector]))
|
|
foms = np.asarray(([i['fom'] for i in self.dataCollector]))
|
|
im1Proj = np.asarray(([i['im1Proj'] for i in self.dataCollector]))
|
|
im2Proj = np.asarray(([i['im2Proj'] for i in self.dataCollector]))
|
|
|
|
if hasattr(self,'fomline'):
|
|
self.fomline.set_ydata(foms)
|
|
self.fomline.set_xdata(times)
|
|
self.axs.set_xlim(np.min(times)-datetime.timedelta(0,10),np.max(times)+datetime.timedelta(0,10))
|
|
|
|
#self.axs[0].autoscale(enable=True,axis='x')
|
|
|
|
else:
|
|
self.fomline = self.axs.plot(times,foms,'o-')[0]
|
|
self.axs.autoscale(enable=True,axis='x')
|
|
#if hasattr(self,'ratioimg'):
|
|
#self.ratioimg.set_data()
|
|
#self.ratioimg.set_ydata(foms)
|
|
#else:
|
|
#self.axs[0].plot(times,foms,'o-')
|
|
|
|
|
|
|
|
|
|
|
|
#def plotOrUpdate(img1,img2):
|
|
#if hasattr(self,i1):
|
|
#self.i1.set_data(img1)
|
|
#else:
|
|
#self.i1 = self.axs.imshow(img1,interpolate='none',origin='bottom')
|
|
#if hasattr(self,i1):
|
|
#self.i1.set_data(img1)
|
|
#else:
|
|
#self.i1 = self.axs.imshow(img1,interpolate='none',origin='bottom')
|
|
|