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iFROG_dev10_6plt.py
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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Tue Aug 20 18:11:57 2019
@author: briansquires, joetoney
"""
import numpy as np
import matplotlib.colors as colors
import matplotlib.pyplot as plt
import scipy.interpolate as interp
from matplotlib import ticker, cm
#%% Data Import
databbo = np.loadtxt("200123_MoS2_840nm_100mW_100mn_1slit_432grating_-11__27t0", delimiter="\t")
databbo = np.delete(databbo, databbo.shape[1]-1, axis=1)
datamos2 = np.loadtxt("200123_MoS2_850nm_100mW_100mn_1slit_432grating_-11__27t0", delimiter="\t")
datamos2 = np.delete(datamos2, datamos2.shape[1]-1, axis=1)
posb=np.loadtxt("200123_MoS2_865nm_100mW_100mn_1slit_432grating_-11__27t0_pos", delimiter="\t")
#posb=np.delete(posb,5000,axis=0)
posm=np.loadtxt("200123_MoS2_865nm_100mW_100mn_1slit_432grating_-11__27t0_pos", delimiter="\t")
#posm=np.delete(posm,5000,axis=0)
#%%
#truncation (data specific)
#datamos2=datamos2[::,:6080]
#posm=np.resize(posm,[6080,])
tzerob = -11704.60461
tzerom = -11707.53711
um2fs = 2*(10**-6)*(10**15)/(3*10**8)
xb=(posb-tzerob)*um2fs
yb=np.linspace(1,databbo.shape[0],num=databbo.shape[0])
xbg,ybg=np.meshgrid(xb,yb)
xm=(posm-tzerom)*um2fs
ym=np.linspace(10,datamos2.shape[0]+10,num=datamos2.shape[0])
xmg,ymg=np.meshgrid(xm,ym)
#%%Normalization
databbo = databbo - np.amin(databbo)
#databbo = databbo/np.amax(databbo)
datamos2 = datamos2 - np.amin(datamos2)
#datamos2 = datamos2/np.amax(datamos2)
#%%
div=datamos2/(databbo)
#%%Joe Plot
datamos2=datamos2
plt.matshow(datamos2, aspect='auto')
plt.show()
#%%Variance
var = []
posold = 0
for i , pos in enumerate(posm):
var.append(posold - pos)
posold = pos
var = var[1::]
s=(np.var(var))**-2
m=np.var(var)
mean=np.mean(var)
print(var)
print(s)
print(m)
print(mean)
#%% Plot Data
f , (ax1,ax2,ax3) =plt.subplots(1, 3, sharey=True)
f.suptitle('840nm')
bboplt = ax1.contourf(xbg,ybg,databbo,np.linspace(databbo.min(), databbo.max(), 5000), cmap='jet')
ax1.set_title('BBO')
#ax1.set_xlim(-500,500)
#ax1.set_ylim(600,800)
cbar = f.colorbar(bboplt)
mos2plt = ax2.contourf(xmg,ymg,datamos2,np.linspace(datamos2.min(), datamos2.max(), 5000),cmap='jet')
ax2.set_title('MoS2')
#ax2.set_xlim(-500,500)
#ax2.set_ylim(600,800)
divplt= ax3.contour(xbg,ybg,div,np.linspace(div.min(), div.max(), 5000),cmap='jet')
ax3.set_title('MoS2/BBO')
#ax3.set_xlim(-500,500)
#ax3.set_ylim(600,800)
#%%Matplot Data
f , (ax1,ax2) =plt.subplots(1, 2, sharex=True, sharey=True)
f.suptitle('840nm')
vmin = 0
vmax = .1
bboplt = ax1.matshow(databbo, aspect='auto',vmin=vmin, vmax = vmax)
ax1.set_title('BBO')
#ax1.set_xlim(-500,500)
#ax1.set_ylim(500,700)
#cbar = f.colorbar(bboplt)
mos2plt = ax2.matshow(datamos2, aspect='auto',vmin=vmin, vmax = vmax)
ax2.set_title('MoS2')
#ax2.set_xlim(-500,500)
#ax2.set_ylim(500,700)
# =============================================================================
# divplt= ax3.matshow(div, aspect='auto')
# ax3.set_title('MoS2/BBO')
# #ax3.set_xlim(-500,500)
# ax3.set_ylim(500,700)
# =============================================================================
#%% Fourier Transform
timestep=0.66713 ##this is the time for one 100nm step. This returns the FFT
# x-axis in THz
### Try np.fft.rfft and np.fft.hfft
### Check to make sure the resulting plots are symmetric in the frequency domain
bfft = np.fft.fft(databbo)
bfft = np.fft.fftshift(bfft, axes=1)
Wb = np.fft.fftfreq(posb.size,timestep)
Wb = np.fft.fftshift(Wb)
xfft=Wb
yfft=np.linspace(1,bfft.shape[0],num=bfft.shape[0])
xgbfft, ygbfft =np.meshgrid(xfft,yfft)
mfft = np.fft.fft(datamos2)
mfft = np.fft.fftshift(mfft, axes=1)
Wm = np.fft.fftfreq(posm.size,timestep)
Wm = np.fft.fftshift(Wm)
xfft=Wm
yfft=np.linspace(1,mfft.shape[0],num=mfft.shape[0])
xgmfft, ygmfft =np.meshgrid(xfft,yfft)
divfft=np.fft.fft(div)
divfft = np.fft.fftshift(divfft, axes=1)
W=np.fft.fftfreq(div[1].size,timestep)
W = np.fft.fftshift(W)
xfft=W
yfft=np.linspace(1,divfft.shape[0],num=divfft.shape[0])
xgdfft, ygdfft =np.meshgrid(xfft,yfft)
#%% Plot FFT
#g, (gx1,gx2) = plt.subplots(1,2, sharey=True)
#xlim1 = .32 ### Sets x min
#xlim2 = .38 ### and max in THz
## =============================================================================
##xlim1 = W.min()
##xlim2 = W.max()
## =============================================================================
#
#ylim1=650 ###Sets ymin
#ylim2 = 720 ###and max in pixel number ---- need to convert to wavelength
#RealFFT = gx1.contourf(xgdfft,ygdfft,(divfft.real),100,
# cmap='jet')
#gx1.set_title('Re{FFT}')
#
#gx1.set_xlim(xlim1,xlim2)
#gx1.set_ylim(ylim1,ylim2)
#
#ImgFFT = gx2.contourf(xgdfft,ygdfft,(divfft.imag),100,
# cmap='jet')
#gx2.set_title('Im{FFT}')
#
#gx2.set_xlim(xlim1,xlim2)
#gx2.set_ylim(ylim1,ylim2)
#%% Plot FFT NEW
g, ((gx1,gx2),(gx3,gx4),(gx5,gx6)) = plt.subplots(3,2, sharex=True, sharey=True)
# =============================================================================
# xlim1 = .32 ### Sets x min
# xlim2 = .38 ### and max in THz
# =============================================================================
xlim1 = W.min()
xlim2 = W.max()
ylim1=500 ###Sets ymin
ylim2 = 700 ###and max in pixel number ---- need to convert to wavelength
# =============================================================================
# divfft = np.absolute(divfft)
# mfft = np.absolute(mfft)
# bfft = np.absolute(bfft)
# =============================================================================
RealFFT = gx1.contourf(xgdfft,ygdfft,(divfft.real),100,cmap='jet')
gx1.set_title('Re{FFT}')
gx1.set_xlim(xlim1,xlim2)
gx1.set_ylim(ylim1,ylim2)
ImgFFT = gx2.contourf(xgdfft,ygdfft,(divfft.imag),100,cmap='jet')
gx2.set_title('Im{FFT}')
gx2.set_xlim(xlim1,xlim2)
gx2.set_ylim(ylim1,ylim2)
RealFFT = gx3.contourf(xgmfft,ygmfft,(mfft.real),100,cmap='jet')
gx3.set_title('M Re{FFT}')
gx3.set_xlim(xlim1,xlim2)
gx3.set_ylim(ylim1,ylim2)
ImgFFT = gx4.contourf(xgmfft,ygmfft,(mfft.imag),100,cmap='jet')
gx4.set_title('M Im{FFT}')
gx4.set_xlim(xlim1,xlim2)
gx4.set_ylim(ylim1,ylim2)
RealFFT = gx5.contourf(xgbfft,ygbfft,(bfft.real),100,cmap='jet')
gx5.set_title('B Re{FFT}')
gx5.set_xlim(xlim1,xlim2)
gx5.set_ylim(ylim1,ylim2)
ImgFFT = gx6.contourf(xgbfft,ygbfft,(bfft.imag),100,cmap='jet')
gx6.set_title('B Im{FFT}')
gx6.set_xlim(xlim1,xlim2)
gx6.set_ylim(ylim1,ylim2)
#%% Window FFT Filter
from scipy import signal
window = signal.general_gaussian(bfft[1].size, p=2, sig=100)
plt.plot(window)
#%% FFT Filtering
xlim1 = 2912
xlim2 = 3168
ylim1 = 480
ylim2 = 736
mfftfilt = mfft[ylim1:ylim2,xlim1:xlim2]
bfftfilt = bfft[ylim1:ylim2,xlim1:xlim2]
divfftfilt = divfft[ylim1:ylim2,xlim1:xlim2]
mfilt = np.fft.ifft(mfftfilt)
Tmfilt = np.fft.fftfreq(Wm.size,Wm[1]-Wm[0])
bfilt = np.fft.ifft(bfftfilt)
Tbfilt = np.fft.fftfreq(Wb.size,Wb[1]-Wb[0])
divfilt = np.fft.ifft(divfftfilt)
Tdfilt = np.fft.fftfreq(W.size,W[1]-W[0])
xfilt=np.linspace(0,divfilt.shape[1],divfilt.shape[1])
yfilt=np.linspace(0,divfilt.shape[0],divfilt.shape[0])
xgfilt, ygfilt = np.meshgrid(xfilt, yfilt)
filtplt, (filtaxM,filtaxB, filtaxD) = plt.subplots(1,3, sharex=True, sharey=True)
#CSM = filtaxM.contourf(xfilt,yfilt,np.abs(mfilt),500,cmap='jet')#,vmin=-10,vmax=10)
#filtaxRe.set_xlim(16,45)
CSB = filtaxB.contourf(xfilt,yfilt,np.abs(bfilt),500,cmap='jet')#,vmin=-10,vmax=10)
#filtaxIm.set_xlim(16,45)
#CSD = filtaxD.contourf(xfilt,yfilt,np.abs(divfilt),500,cmap='jet')#,vmin=-10,vmax=10)
#%% interpolate
xgrid, ygrid = np.meshgrid(256,1024)
grid_z0 = griddata((xfilt,yfilt), divfilt.real, (xgrid, ygrid), method='nearest')
plt.contourf(xgrid, ygrid, grid_z0)
1298::
np.where(Wb==3.20007858e-01)
3.50085638e-01
3.80163418e-01