def main_routine (wd="./",cfg="./python/parameter.cfg",delayCnt=11,delay=27.725,phaseCnt=11,sType=1,p3d=0,AMap="Blues",RMap="Reds",IMap="Greens"):
### read config file ###
print ("load from config file: " + cfg)
configParser = cp.ConfigParser()
configParser.read(cfg)
print (configParser.sections())
cfg=configParser.__dict__['_sections'].copy()
#for src, target in cfg['NVSETUP'].items():
# print(src + " : " + target)
omega_c = float(cfg['NVSETUP']['{omega_c}'])
nWrite=int(cfg['OCFourier']['{write_harmonic}'])
nRead =int(cfg['OCFourier']['{read_harmonic}'])
nStore=int(cfg['MEFourier']['{storage_harmonic}'])
nDown =nRead+nWrite
nUp =nDown+nWrite
### read config file ###
### read data ###
cavityWrite,cavityMemo,cavityRead =IOHelper.harmonics_readwrite(**cfg)
time =IOHelper.functionaltimes_readwrite(**cfg)
time['write'][:] *= 1e9
time['read'][:] *= 1e9
ti = int(time['idx_ti'])
tf = int(time['idx_tf'])
functime = time['read'][ti:tf]
dt = float(time['delta_t'])
filename =IOHelper.getVectorOverlap(**cfg)
reGamma,imGamma=sp.loadtxt(filename).T
alphaR =reGamma[0:nRead] -1j*imGamma[0:nRead]
alphaD =reGamma[nRead:nDown]-1j*imGamma[nRead:nDown]
alphaU =reGamma[nDown:nUp] -1j*imGamma[nDown:nUp]
### read data ###
### plotting
Reg1Up = sp.dot(alphaU.conj(),cavityWrite)
Reg1Down = sp.dot(alphaD.conj(),cavityWrite)
Reg2Down = sp.dot(alphaD.conj(),cavityMemo)
Reg2Up = sp.dot(alphaU.conj(),cavityMemo)
Reg2Read = sp.dot(alphaR.conj(),cavityRead)
Reg2DownRead = Reg2Down + Reg2Read
Reg2UpRead = Reg2Up + Reg2Read
# FuncInfo = sp.zeros([3,delayCnt,phaseCnt])
# FuncInfoPhase = sp.zeros([3,delayCnt,phaseCnt])
# FuncShiftRead = sp.zeros([3,delayCnt,phaseCnt,functime.size],complex)
FuncShiftRead = sp.zeros([delayCnt,phaseCnt,functime.size],complex)
FuncInfoOlap = sp.zeros([3,delayCnt,phaseCnt])
FuncInfoArea = sp.zeros([3,delayCnt,phaseCnt])
for i in sp.arange(0.0,delayCnt):
myDelay = i/(delayCnt-1.0)*delay
shift=sp.absolute(time['read'][:]-(functime[0]-myDelay)).argmin()-1
for j in sp.arange(0.0,phaseCnt):
phi = j*2.0*sp.pi/(phaseCnt-1.0)
FuncShiftRead[i,j,:] = sp.exp(-1j*phi)*Reg2Down[shift:shift+functime.size] + Reg2Read[shift:shift+functime.size]
FuncShiftRead[i,j,:] += Reg2UpRead [ti:tf] # ????? why ??????
FuncInfoIntegrand = sp.absolute(FuncShiftRead[i,j,:])*sp.absolute(Reg2UpRead[ti:tf])
FuncInfoOlap [0,i,j] = cumtrapz( FuncInfoIntegrand, x=None, dx=dt )[-1]
FuncInfoIntegrand = FuncShiftRead[i,j,:].conj() * Reg2UpRead[ti:tf]
FuncInfoOlap [1,i,j] = cumtrapz( FuncInfoIntegrand.real, x=None, dx=dt )[-1]
FuncInfoOlap [2,i,j] = cumtrapz( FuncInfoIntegrand.imag, x=None, dx=dt )[-1]
FuncInfoArea [0,i,j] = cumtrapz( sp.absolute(FuncShiftRead[i,j,:])**2, x=None, dx=dt )[-1]
FuncInfoArea [1,i,j] = cumtrapz( sp.real (FuncShiftRead[i,j,:]) , x=None, dx=dt )[-1]
FuncInfoArea [2,i,j] = cumtrapz( sp.imag (FuncShiftRead[i,j,:]) , x=None, dx=dt )[-1]
xx, yy = sp.meshgrid(sp.linspace(0.0,2.0*sp.pi,phaseCnt),sp.linspace(0.0,delay,delayCnt))
zzOlap2 = FuncInfoOlap[0,:,:]#/(sp.absolute(FuncInfoOlap[0,:,:]).max())
zzOlapR = FuncInfoOlap[1,:,:]#/(sp.absolute(FuncInfoOlap[1,:,:]).max())
zzOlapI = FuncInfoOlap[2,:,:]#/(sp.absolute(FuncInfoOlap[2,:,:]).max())
zzArea2 = FuncInfoArea[0,:,:]#/(sp.absolute(FuncInfoArea[0,:,:]).max())
zzAreaR = FuncInfoArea[1,:,:]#/(sp.absolute(FuncInfoArea[1,:,:]).max())
zzAreaI = FuncInfoArea[2,:,:]#/(sp.absolute(FuncInfoArea[2,:,:]).max())
zmin = 0.0
zmax = +1.0
fs = 20
fig = plt.figure()
fig1 = fig.add_subplot(231, projection='3d')
fig1.plot_surface(xx, yy, zzOlapR, rstride=5, cstride=5, cmap=RMap, alpha=0.5,zorder=11.0,vmin=zzOlapR.min(), vmax=zzOlapR.max())
# fig1.contourf(xx, yy, zzOlapR, zdir='z', offset=zmin, cmap=RMap, vmin=-1, vmax=1,zorder=1.0)
fig1.set_zlim(zzOlapR.min(),zzOlap2.max())
fig1.set_title("a) Re$(O_{\mathbb{C}}(e^{-i\Phi_0}A_0(t-\Delta t)+A_1(t);A_1(t)))$",fontsize=fs)
fig1.set_ylabel("$\Delta t$ in ns",fontsize=fs)
fig1.set_xlabel("$\Phi_0/\pi$",fontsize=fs)
fig2 = fig.add_subplot(232, projection='3d')
fig2.plot_surface(xx, yy, zzOlapI, rstride=5, cstride=5, cmap=IMap, alpha=0.5,zorder=11.0,vmin=zzOlapI.min(), vmax=zzOlapI.max())
# fig2.contourf(xx, yy, zzOlapI, zdir='z', offset=zmin, cmap=IMap, vmin=-1, vmax=1,zorder=1.0)
fig2.set_zlim(zzOlapI.min(),zzOlapI.max())
fig2.set_title("b) Im$(O_{\mathbb{C}}(e^{-i\Phi_0}A_0(t-\Delta t)+A_1(t);A_1(t)))$",fontsize=fs)
fig2.set_ylabel("$\Delta t$ in ns",fontsize=fs)
fig2.set_xlabel("$\Phi_0/\pi$",fontsize=fs)
fig0 = fig.add_subplot(233, projection='3d')
fig0.plot_surface(xx, yy, zzOlap2, rstride=5, cstride=5, cmap=AMap, alpha=0.5,zorder=11.0,vmin=zzOlap2.min(), vmax=zzOlap2.max())
# fig0.contourf(xx, yy, zzOlap2, zdir='z', offset=zmin, cmap=AMap, vmin=0, vmax=1,zorder=1.0)
fig0.set_zlim(zzOlap2.min(),zzOlap2.max())
fig0.set_title("c) $O_{\mathbb{R}}(e^{-i\Phi_0}A_0(t-\Delta t)+A_1(t);A_1(t))$",fontsize=fs)
fig0.set_ylabel("$\Delta t$ in ns",fontsize=fs)
fig0.set_xlabel("$\Phi_0/\pi$",fontsize=fs)
fig4 = fig.add_subplot(234, projection='3d')
fig4.plot_surface(xx, yy, zzAreaR, rstride=5, cstride=5, cmap=RMap, alpha=0.5,zorder=11.0,vmin=zzAreaR.min(), vmax=zzAreaR.max())
# fig4.contourf(xx, yy, zzAreaR, zdir='z', offset=zmin, cmap=RMap, vmin=-1, vmax=1,zorder=1.0)
fig4.set_zlim(zzAreaR.min(),zzAreaR.max())
fig4.set_title("d) Area under Re$(e^{-i\Phi_0}A_0(t-\Delta t)+A_1(t))$",fontsize=fs)
fig4.set_ylabel("$\Delta t$ in ns",fontsize=fs)
fig4.set_xlabel("$\Phi_0/\pi$",fontsize=fs)
fig5 = fig.add_subplot(235, projection='3d')
fig5.plot_surface(xx, yy, zzAreaI, rstride=5, cstride=5, cmap=IMap, alpha=0.5,zorder=11.0,vmin=zzAreaI.min(), vmax=zzAreaI.max())
# fig5.contourf(xx, yy, zzAreaI, zdir='z', offset=zmin, cmap=IMap, vmin=-1, vmax=1,zorder=1.0)
fig5.set_zlim(zzAreaI.min(),zzAreaI.max())
fig5.set_title("e) Area under Im$(e^{-i\Phi_0}A_0(t-\Delta t)+A_1(t))$",fontsize=fs)
fig5.set_ylabel("$\Delta t$ in ns",fontsize=fs)
fig5.set_xlabel("$\Phi_0/\pi$",fontsize=fs)
fig3 = fig.add_subplot(236, projection='3d')
fig3.plot_surface(xx, yy, zzArea2, rstride=5, cstride=5, cmap=AMap, alpha=0.5,zorder=11.0,vmin=zzArea2.min(), vmax=zzArea2.max())
# fig3.contourf(xx, yy, zzArea2, zdir='z', offset=zmin, cmap=AMap, vmin=0, vmax=1,zorder=1.0)
fig3.set_zlim(zzArea2.min(),zzArea2.max())
fig3.set_title("f) Area under $|e^{-i\Phi_0}A_0(t-\Delta t)+A_1(t)|^2$",fontsize=fs)
fig3.set_ylabel("$\Delta t$ in ns",fontsize=fs)
fig3.set_xlabel("$\Phi_0/\pi$",fontsize=fs)
plt.show()
def main_routine (wd="./",cfg="./python/parameter.cfg",thetaCnt=11,phiCnt=11,bloch=0,myMap="jet",minOlap=0,fortranCheck=0,gridR=5,gridC=5):
### read config file ###
print ("load from config file: " + cfg)
cfg=IOHelper.loadCfg(wd,cfg)
#for src, target in cfg['NVSETUP'].items():
# print(src + " : " + target)
omega_c = float(cfg['NVSETUP']['{omega_c}'])
nWrite=int(cfg['OCFourier']['{write_harmonic}'])
nRead =int(cfg['OCFourier']['{read_harmonic}'])
nStore=int(cfg['MEFourier']['{storage_harmonic}'])
nDown =nRead+nWrite
nUp =nDown+nWrite
### read config file ###
### read data ###
cavityWrite,cavityMemo,cavityRead =IOHelper.harmonics_readwrite(**cfg)
time =IOHelper.functionaltimes_readwrite(**cfg)
time['write'][:] *= 1e9
time['read'][:] *= 1e9
ti = int(time['idx_ti'])
tf = int(time['idx_tf'])
functime = time['read'][ti:tf]
dt = float(time['delta_t'])
filename =IOHelper.getVectorOverlap(**cfg)
reGamma,imGamma=sp.loadtxt(filename).T
alphaR =reGamma[0:nRead] -1j*imGamma[0:nRead]
alphaD =reGamma[nRead:nDown]-1j*imGamma[nRead:nDown]
alphaU =reGamma[nDown:nUp] -1j*imGamma[nDown:nUp]
### read data ###
### plotting
Reg1Up = sp.dot(alphaU.conj(),cavityWrite)
Reg1Down = sp.dot(alphaD.conj(),cavityWrite)
Reg2Down = sp.dot(alphaD.conj(),cavityMemo)
Reg2Up = sp.dot(alphaU.conj(),cavityMemo)
Reg2Read = sp.dot(alphaR.conj(),cavityRead)
Reg2DownRead = Reg2Down + Reg2Read
Reg2UpRead = Reg2Up + Reg2Read
spos = sp.zeros([2,thetaCnt,phiCnt],complex)
FuncInfoOlap = sp.zeros([2,thetaCnt,phiCnt],complex)
gamma = sp.zeros([thetaCnt,phiCnt],complex)
delta = sp.zeros([thetaCnt,phiCnt],complex)
# I00 = 1j*cumtrapz( (Reg2Down[ti:tf].conj() * Reg2Down[ti:tf]).imag, x=None, dx=dt )[-1]
I00 = cumtrapz( (Reg2Down[ti:tf] * Reg2Down[ti:tf].conj()).real, x=None, dx=dt )[-1]
I01 = 1j*cumtrapz( (Reg2Up [ti:tf] * Reg2Down[ti:tf].conj()).imag, x=None, dx=dt )[-1]
I01 += cumtrapz( (Reg2Up [ti:tf] * Reg2Down[ti:tf].conj()).real, x=None, dx=dt )[-1]
I0R = 1j*cumtrapz( (Reg2Read[ti:tf] * Reg2Down[ti:tf].conj()).imag, x=None, dx=dt )[-1]
I0R += cumtrapz( (Reg2Read[ti:tf] * Reg2Down[ti:tf].conj()).real, x=None, dx=dt )[-1]
# I11 = 1j*cumtrapz( (Reg2Up [ti:tf].conj() * Reg2Up [ti:tf]).imag, x=None, dx=dt )[-1]
I11 = cumtrapz( (Reg2Up [ti:tf] * Reg2Up [ti:tf].conj()).real, x=None, dx=dt )[-1]
I10 = 1j*cumtrapz( (Reg2Down[ti:tf] * Reg2Up [ti:tf].conj()).imag, x=None, dx=dt )[-1]
I10 += cumtrapz( (Reg2Down[ti:tf] * Reg2Up [ti:tf].conj()).real, x=None, dx=dt )[-1]
I1R = 1j*cumtrapz( (Reg2Read[ti:tf] * Reg2Up [ti:tf].conj()).imag, x=None, dx=dt )[-1]
I1R += cumtrapz( (Reg2Read[ti:tf] * Reg2Up [ti:tf].conj()).real, x=None, dx=dt )[-1]
for i in sp.arange(0.0,thetaCnt):
theta = i/(thetaCnt-1.0) # from 0 to 1 * pi
for j in sp.arange(0.0,phiCnt):
phi = j/(phiCnt-1.0)*2.0 # from 0 to 2 * pi
spos[0,i,j] = sp.cos(theta*sp.pi/2.0)
spos[1,i,j] = sp.sin(theta*sp.pi/2.0)*sp.exp(1j*phi*sp.pi)
if fortranCheck == 1:
cmd = "./scripts/ifort-checkBloch.sh " + wd
print ("compile fortran routines: "+cmd)
call(cmd.split())
print ("### call checkBloch")
cmd=wd+"checkBloch"
generateSuperposition = Popen(cmd.split(), stdin=PIPE) # run fortran program with piped standard input
cmd = "echo {:}".format(thetaCnt) # communication with fortran-routine: chose superposition parameter
generateInput = Popen(cmd.split(), stdout=generateSuperposition.stdin) # send action to fortran program
cmd = "echo {:}".format(phiCnt) # communication with fortran-routine: chose superposition parameter
generateInput = Popen(cmd.split(), stdout=generateSuperposition.stdin) # send action to fortran program
output = generateSuperposition.communicate()[0]
generateInput.wait()
FuncInfoOlap [0,:,:],FuncInfoOlap [1,:,:]=IOHelper.read_MtrxProjection(thetaCnt,phiCnt,**cfg['FILES'])
else:
for i in sp.arange(0.0,thetaCnt):
for j in sp.arange(0.0,phiCnt):
FuncCavity = spos[0,i,j]*Reg2Down[ti:tf] + spos[1,i,j]*Reg2Up[ti:tf]
FuncCavity[:] += Reg2Read [ti:tf]
FuncInfoOlap [0,i,j] = cumtrapz( (FuncCavity[:] * Reg2Down[ti:tf].conj()).real, x=None, dx=dt )[-1]
FuncInfoOlap [0,i,j] += 1j*cumtrapz( (FuncCavity[:] * Reg2Down[ti:tf].conj()).imag, x=None, dx=dt )[-1]
FuncInfoOlap [1,i,j] = cumtrapz( (FuncCavity[:] * Reg2Up[ti:tf].conj()).real, x=None, dx=dt )[-1]
FuncInfoOlap [1,i,j] += 1j*cumtrapz( (FuncCavity[:] * Reg2Up[ti:tf].conj()).imag, x=None, dx=dt )[-1]
if minOlap==0:
gamma[:,:]=((FuncInfoOlap [0,:,:]-I0R)*I11+(I1R-FuncInfoOlap [1,:,:])*I01)/(I11*I00-I01*I10)
delta[:,:]=((FuncInfoOlap [1,:,:]-I1R)*I00+(I0R-FuncInfoOlap [0,:,:])*I10)/(I11*I00-I01*I10)
else :
gamma[:,:]= (FuncInfoOlap [0,:,:]-I0R)/I00
delta[:,:]= (FuncInfoOlap [1,:,:]-I1R)/I11
fs = 22
label_size = 12
plt.rcParams['xtick.labelsize'] = label_size
plt.rcParams['ytick.labelsize'] = label_size
plt.rcParams['xtick.major.pad']='20'
plt.rcParams['ytick.major.pad']='20'
fig = plt.figure()
if bloch == 0:
xx, yy = sp.meshgrid(sp.linspace(0.0,2.0,phiCnt),sp.linspace(0.0,1.0,thetaCnt))
zmin = 0.0
zmax = +1.0
zzOlapR0 = gamma [:,:].real
zzOlapI0 = gamma [:,:].imag
zzErr0 = sp.absolute(gamma[:,:]-spos[0,:,:])
zzOlapR1 = delta [:,:].real
zzOlapI1 = delta [:,:].imag
zzErr1 = sp.absolute(delta[:,:]-spos[1,:,:])
fig1 = fig.add_subplot(321, projection='3d')
fig1.plot_surface(xx, yy, zzOlapR0, rstride=gridR, cstride=gridC, cmap=myMap, alpha=0.5,zorder=11.0,vmin=zzOlapR0.min(), vmax=zzOlapR0.max())
fig1.set_zlim(0,1)
# fig1.set_title("Re$[\,\gamma_R\,]\\approx\cos(\\theta/2)$",fontsize=fs)
fig1.set_title("Re$[\,\gamma_R\,]$",fontsize=fs)
fig1.set_ylabel("$\\theta_W/\pi$",fontsize=fs)
fig1.set_xlabel("$\phi_W / \pi$",fontsize=fs)
fig1 = fig.add_subplot(323, projection='3d')
fig1.plot_surface(xx, yy, zzOlapI0, rstride=gridR, cstride=gridC, cmap=myMap, alpha=0.5,zorder=11.0,vmin=zzOlapI0.min(), vmax=zzOlapI0.max())
# fig1.set_zlim(-0.01,0.01)
# fig1.set_title("Im$[\,\gamma_R\,]\\approx\cos(\\theta/2)$",fontsize=fs)
fig1.set_title("Im$[\,\gamma_R\,]$",fontsize=fs)
fig1.set_ylabel("$\\theta_W/\pi$",fontsize=fs)
fig1.set_xlabel("$\phi_W/\pi$",fontsize=fs)
fig1 = fig.add_subplot(322, projection='3d')
fig1.plot_surface(xx, yy, zzOlapR1, rstride=gridR, cstride=gridC, cmap=myMap, alpha=0.5,zorder=11.0,vmin=zzOlapR1.min(), vmax=zzOlapR1.max())
fig1.set_zlim(-1,1)
# fig1.set_title("Re$[\,\delta_R\,]\\approx\sin(\\theta/2)\cos(\phi)$",fontsize=fs)
fig1.set_title("Re$[\,\delta_R\,]$",fontsize=fs)
fig1.set_ylabel("$\\theta_W/\pi$",fontsize=fs)
fig1.set_xlabel("$\phi_W / \pi$",fontsize=fs)
fig1 = fig.add_subplot(324, projection='3d')
fig1.plot_surface(xx, yy, zzOlapI1, rstride=gridR, cstride=gridC, cmap=myMap, alpha=0.5,zorder=11.0,vmin=zzOlapI1.min(), vmax=zzOlapI1.max())
fig1.set_zlim(-1,1)
# fig1.set_title("Im$[\,\delta_R\,]\\approx\sin(\\theta/2)\sin(\phi)$",fontsize=fs)
fig1.set_title("Im$[\,\delta_R\,]$",fontsize=fs)
fig1.set_ylabel("$\\theta_W/\pi$",fontsize=fs)
fig1.set_xlabel("$\phi_W/\pi$",fontsize=fs)
fig1 = fig.add_subplot(325, projection='3d')
fig1.plot_surface(xx, yy, zzErr0, rstride=gridR, cstride=gridC, cmap=myMap, alpha=0.5,zorder=11.0,vmin=zzErr0.min(), vmax=zzErr0.max())
# fig1.set_zlim(-1,1)
# fig1.set_title("Re$[\,\delta_R\,]\\approx\sin(\\theta/2)\cos(\phi)$",fontsize=fs)
fig1.set_title("$\epsilon_\gamma$",fontsize=fs)
fig1.set_ylabel("$\\theta_W/\pi$",fontsize=fs)
fig1.set_xlabel("$\phi_W / \pi$",fontsize=fs)
fig1 = fig.add_subplot(326, projection='3d')
fig1.plot_surface(xx, yy, zzErr1, rstride=gridR, cstride=gridC, cmap=myMap, alpha=0.5,zorder=11.0,vmin=zzErr1.min(), vmax=zzErr1.max())
# fig1.set_zlim(-1,1)
# fig1.set_title("Re$[\,\delta_R\,]\\approx\sin(\\theta/2)\cos(\phi)$",fontsize=fs)
fig1.set_title("$\epsilon_\delta$",fontsize=fs)
fig1.set_ylabel("$\\theta_W/\pi$",fontsize=fs)
fig1.set_xlabel("$\phi_W / \pi$",fontsize=fs)
else:
# x_expect = 2e0*sp.real(FuncInfoOlap [0,:,:]*FuncInfoOlap [1,:,:])
#
x = 2e0*sp.real(spos[0,:,:].conj()*spos [1,:,:])
y = 2e0*sp.real(spos[0,:,:].conj()*spos [1,:,:]/1.0j)
z = sp.absolute(spos[0,:,:])**2 -sp.absolute(spos [1,:,:])**2
xprime = 2e0*sp.real(gamma [:,:].conj()*delta [:,:])
yprime = 2e0*sp.real(gamma [:,:].conj()*delta [:,:]/1.0j)
zprime = sp.absolute(gamma [:,:])**2 -sp.absolute(delta [:,:])**2
myDensity = sp.sqrt(sp.absolute(x-xprime)**2 + sp.absolute(y-yprime)**2 + sp.absolute(z-zprime)**2)
# myDensity = 1.0 - (x*xprime + y*yprime + z*zprime)
cm = plt.cm.get_cmap(myMap)
myMin = myDensity.min()
myMax = max(sp.absolute(myDensity.max()),sp.absolute(myDensity.min()))
myColors = cm(myDensity/myMax)
m = plt.cm.ScalarMappable(cmap=myMap)
fig3D = fig.add_subplot(1, 1, 1, projection='3d')
surf = fig3D.plot_surface(xprime, yprime, zprime, rstride=1, cstride=1, linewidth=1, color="black",
facecolors=myColors,shade=False,antialiased=True,
vmin=myMin, vmax=myMax)
# fig3D.plot_wireframe(x*1.01, y*1.01, z*1.01, rstride=1, cstride=1,alpha=1,linewidth=1,color="black")
tick2=(myMin+myMax)/2.0
tick1=round_sig(myMin+(myMax-myMin)*0.1,2)
tick3=round_sig(myMax-(myMax-myMin)*0.1,2)
tick2=round_sig(tick2,2)
print "### error boundaries:", tick1,tick2,tick3
m.set_array(myDensity)
cb= plt.colorbar(m,shrink=0.5,aspect=7,ticks=([tick1,tick2,tick3]))
cb.formatter.set_scientific(True)
cb.formatter.set_powerlimits((0, 0))
cb.update_ticks()
fig3D.set_xlabel("$\langle \sigma_x(\gamma^\prime,\delta^\prime) \\rangle$", fontsize=fs)
fig3D.set_ylabel("$\langle \sigma_y(\gamma^\prime,\delta^\prime) \\rangle$", fontsize=fs)
fig3D.set_zlabel("$\langle \sigma_z(\gamma^\prime,\delta^\prime) \\rangle$", fontsize=fs)
fig3D.set_xticks([-1,0,1])
fig3D.set_xlim([-1.01,1.01])
fig3D.xaxis._axinfo['label']['space_factor'] = 2.0
fig3D.set_yticks([-1,0,1])
fig3D.set_ylim([-1.01,1.01])
fig3D.yaxis._axinfo['label']['space_factor'] = 2.0
fig3D.set_zticks([-1,0,1])
fig3D.set_zlim([-1.01,1.01])
fig3D.zaxis._axinfo['label']['space_factor'] = 2.0
plt.show()
def main_routine (writeBase=8.0,writeCnt=1,readBase=2.0,readCnt=1,datPath="dat/",prefix="pa",destPath="../parallel/",gentype="c",funcCfg=0):
"""
Parameters:
-----------
--writeBase: maximum value of writing time interval in multiples of Pi/{base_rabi}.
(float)
--wirteCnt: number of different writing intervals from 1.0 to writeBase times Pi/{base_rabi}
(int)
--readBase: maximum value of reading time interval in multiples of Pi/{base_rabi}.
(float)
--readCnt: number of different reading intervals from 1.0 to readBase times Pi/{base_rabi}
(int)
--destPath: directory where output files are generated (for every parameter setting of
writeBase/writeCnt, readBase/readCnt a corresponding subdirectory is created)
(string)
--gentype : type of data generation -->
g : generate data with modNv
r : read data with modNv and
c : collect data and produce 3d plot of reading area
"""
dWrite = sp.array(range(0,writeCnt))
dRead = sp.array(range(0,readCnt))
if (writeCnt == 1):
write_base = sp.ones([readCnt])*writeBase
else:
write_base = (1.0+(writeBase-1.0)/float(writeCnt-1)*dWrite[:])
if (readCnt == 1):
read_base = sp.ones([writeCnt])*readBase
else:
read_base = (1.0+(readBase-1.0)/float(readCnt-1)*dRead[:])
print read_base
# print (write_base)
# print (read_base)
if (gentype=="g" or gentype=="r"): # generate
pool = multiprocessing.Pool(processes=multiprocessing.cpu_count())
results = [ pool.apply_async(run_single_job, args=(wb,rb,datPath,prefix,destPath,gentype,funcCfg))
for wb,rb in zip(write_base, read_base) ]
results = [ p.get() for p in results ]
pool.terminate()
elif (gentype=="c"): # collect
configPath="./python/parameter.cfg"
print ("load from config file: " + configPath)
configParser = cp.ConfigParser()
configParser.read(configPath)
cfg=configParser.__dict__['_sections'].copy()
nRead =int(cfg['OCFourier']['{read_harmonic}'])
nWrite=int(cfg['OCFourier']['{write_harmonic}'])
timeCntWrite = int(cfg['OCTime']['{write_timecnt}'])
timeCntRead = int(cfg['OCTime']['{read_timecnt}'])
timeCnt = timeCntRead+timeCntWrite
omega_c=float(cfg['NVSETUP']['{omega_c}'])*2.0*sp.pi
omega_r=float(cfg['OCFourier']['{base_rabi}'])/1e6
tUnit =sp.pi/(2.0*sp.pi*1e3*omega_r)
filelist=[]
div =10.0
# readCnt = 17
cavity=sp.zeros((2,readCnt,timeCntRead))
time =sp.zeros(timeCnt)
wb=write_base[-1] # choose last element
errCnt=[]
name_optimized=cfg['FILES']['{name_optimized}']
name_readwrite=IOHelper.getNameReadWrite(**cfg)
for rb in range(readCnt):
newDir=dest(destPath,wb,read_base[rb])
cfg['FILES']['{prefix}'] = newDir+datPath+prefix+name_readwrite+name_optimized
try:
filename=cfg['FILES']['{prefix}']+"cavityMode_read_down"+cfg['FILES']['{postfix}']
print filename
time,real,imag = sp.loadtxt(filename).T
cavity[0,rb,:] = real[timeCntWrite:timeCntWrite+timeCntRead]**2+imag[timeCntWrite:timeCntWrite+timeCntRead]**2
except:
errCnt.append("down: {:8.4f}\n".format(read_base[rb]))
try:
filename=cfg['FILES']['{prefix}']+"cavityMode_read_up"+cfg['FILES']['{postfix}']
time,real,imag = sp.loadtxt(filename).T
cavity[1,rb,:] = real[timeCntWrite:timeCntWrite+timeCntRead]**2+imag[timeCntWrite:timeCntWrite+timeCntRead]**2
except:
errCnt.append("up: {:8.4f}\n".format(read_base[rb]))
if (len(errCnt) != 0):
print ("can't read some files:\n" + str(errCnt))
print ("generating color map")
# read funtional times t2, t3
newDir=dest(destPath,wb,read_base.max())
cfg['FILES']['{prefix}']=newDir+datPath+prefix
functime =IOHelper.functionaltimes_readwrite(**cfg)
ti=float(functime['ti'])/omega_c/tUnit # in nano seconds
ti_i = int(functime['idx_ti'])-1
tf=float(functime['tf'])/omega_c/tUnit # in nano seconds
tf_i = int(functime['idx_tf'])
functimeX =sp.array([1.0,readBase])
functimeY =sp.array([(tf+ti)/2.0,tf])
cutShortX =sp.array([1.0,1.0])
cutLargeX =sp.array([readBase,readBase])
cutShortY =sp.array([writeBase,writeBase+readBase/2.0])
cutLargeY =sp.array([writeBase,writeBase+readBase])
functimeZ =sp.array([-1.5,-1.5])
functimeYMid=sp.array([ti + (tf-ti)/4.0,ti+ (tf-ti)/2.0])
# read funtional times t2, t3
# define the grid over which the function should be plotted (xx and yy are matrices)
xx, yy = sp.meshgrid(sp.linspace(1.0,readBase,readCnt),
sp.linspace(ti,tf,tf_i-ti_i))
zz0 = cavity[0,:,ti_i:tf_i].T/cavity[:,:,ti_i:tf_i].max()
zz1 = cavity[1,:,ti_i:tf_i].T/cavity[:,:,ti_i:tf_i].max()
# xx, yy = sp.meshgrid(sp.linspace(1.0,readBase,readCnt),
# sp.linspace(time[timeCntRead/div]/tUnit,time[-1]/tUnit,timeCntRead/div))
# zz1 = cavity[0,:,:].T/cavity[:,:,:].max()
# zz1 = cavity[1,:,:].T/cavity[:,:,:].max()
font = {
'fontsize' : 26,
'verticalalignment' : 'top',
'horizontalalignment' : 'center'
}
# cm('font', **font)
# rc('text', usetex=True)
fig = plt.figure()
# ax = fig.gca(projection='3d')
fig0 = fig.add_subplot(121, projection='3d')
fig0.plot_surface(xx, yy, zz0, rstride=10, cstride=5, cmap=cm.Blues, alpha=0.5,zorder=11.0,vmin=-0.25, vmax=1)
fig0.contourf(xx, yy, zz0, zdir='z', offset=-1.5, cmap=cm.Blues,vmin=-0.25, vmax=1)
fig0.plot(functimeX, functimeY, functimeZ,'k--',zorder=10.0)
fig0.plot(functimeX, functimeYMid, functimeZ,'k--',zorder=10.0)
fig0.plot(cutShortX, cutShortY, functimeZ,'m-',linewidth=2.5,zorder=10.0)
fig0.plot(cutLargeX, cutLargeY, functimeZ,'g-',linewidth=2.5,zorder=10.0)
fig0.set_title("a) state \"0\"", **font)
fig0.set_xlabel("$\Delta T_{\cal F} \, / \, \\frac{T_R}{2}$", **font)
fig0.set_ylabel("$t \, / \, \\frac{T_R}{2}$", **font)
fig0.set_zlabel("$\left|A(t)\\right|^2 \, / \, \left|A_{max}(t)\\right|^2$", **font)
fig0.set_zlim(-1.5, 1.0)
fig1 = fig.add_subplot(122, projection='3d')
fig1.plot_surface(xx, yy, zz1, rstride=10, cstride=5, cmap=cm.Reds, alpha=0.5,zorder=11.0,vmin=-0.25, vmax=1)
fig1.contourf(xx, yy, zz1, zdir='z', offset=-1.5, cmap=cm.Reds,vmin=-0.25, vmax=1)
fig1.plot(functimeX, functimeY, functimeZ,'k--',zorder=10.0)
fig1.plot(functimeX, functimeYMid, functimeZ,'k--',zorder=10.0)
fig1.plot(cutShortX, cutShortY, functimeZ,'m-',linewidth=2.5,zorder=10.0)
fig1.plot(cutLargeX, cutLargeY, functimeZ,'g-',linewidth=2.5,zorder=10.0)
fig1.set_title("b) state \"1\"", **font)
fig1.set_xlabel("$\Delta T_{\cal F} \, / \, \\frac{T_R}{2}$", **font)
fig1.set_ylabel("$t \, / \, \\frac{T_R}{2}$", **font)
fig1.set_zlabel("$\left|A(t)\\right|^2 \, / \, \left|A_{max}(t)\\right|^2$", **font)
fig1.set_zlim(-1.5, 1.0)
# plt.subplot(1, 2, 1)
# plt.pcolor(xx,yy,zz0)
# plt.axis([xx.min(),xx.max(),yy.min(),yy.max()])
# plt.plot(functimeX,functimeY, 'w', linewidth=2)
# plt.plot(functimeX,functimeYMid, 'w-', linewidth=2)
# plt.title("time bin state \"0\"")
# plt.xlabel("$T_{functional} \, / \, \\frac{\pi}{\Omega_R[MHz]}$", **font)
# plt.ylabel("$t \, / \, \\frac{\pi}{\Omega_R[MHz]}$", **font)
# plt.subplot(1, 2, 2)
# plt.pcolor(xx,yy,zz1)
# plt.axis([xx.min(),xx.max(),ti,tf])
# plt.plot(functimeX,functimeY, 'w', linewidth=2)
# plt.plot(functimeX,functimeYMid, 'w-', linewidth=2)
# plt.title("time bin sstate \"1\"")
# plt.xlabel("$T_{functional} \, / \, \\frac{\pi}{\Omega_R[MHz]}$", **font)
# plt.colorbar(label="$\left|A_{0,/1}(t)\\right|^2 \, / \, max(\left|A(t))\\right|^2$")
plt.show()
else:
print ("option unkown: gentype="+gentype)
def main_routine (baseDir="./",configPath="./python/parameter.cfg",generationType="r"):
print "#################################################################"
print "#################################################################"
print "### optimal control #############################################"
print "### preparation of smallest overlap functional ##################"
print "#################################################################"
print "#################################################################"
### globals for functional variation
global time, cavityRead, cavityMemo, \
nRead, nDown, nUp, nWrite, dimH, \
cfg, \
h0, hc_up, hc_down, hs_up, hs_down, hsep, \
weight_up, weight_down, sepZeroWeight, \
normUp, normDown, normRead, \
hole, \
iteration
tmpDir=baseDir+"tmp/"
# parser.add_argument("--cfg" , help="config path")
### check for arguments, g: generate data, r: read data ###
### read config file ###
print ("load from config file: " + configPath)
configParser = cp.ConfigParser()
configParser.read(configPath)
print (configParser.sections())
cfg=configParser.__dict__['_sections'].copy()
#for src, target in cfg['NVSETUP'].items():
# print(src + " : " + target)
nRead =int(cfg['OCFourier']['{read_harmonic}'])
nWrite=int(cfg['OCFourier']['{write_harmonic}'])
nDown =nRead+nWrite
nUp =nDown+nWrite
nTimeRead =int(cfg['OCTime']['{read_timecnt}'])
dimH =nRead + 2*nWrite
normRead =float(cfg['OCConstraints']['{amplitude_read}'])
normDown =float(cfg['OCConstraints']['{amplitude_down}'])
normUp =float(cfg['OCConstraints']['{amplitude_up}'])
name_readwrite = IOHelper.getNameReadWrite(**cfg)
name_vector = IOHelper.getVectorOverlap(**cfg)
### read config file ###
### prepare data with fortran ###
cmd = "mkdir -p " + tmpDir
print (tmpDir)
call(cmd.split())
replace_in_file('./python/py.parNvCenter.F95' , tmpDir +'parNvCenter.F95', **cfg['NVSETUP'])
replace_in_file('./python/py.parSmallestOverlap.F95', tmpDir +'parSmallestOverlap.F95', **cfg['OCFourier'])
replace_in_file(tmpDir +'parSmallestOverlap.F95', tmpDir +'parSmallestOverlap.F95', **cfg['OCConstraints'])
replace_in_file(tmpDir +'parSmallestOverlap.F95', tmpDir +'parSmallestOverlap.F95', **cfg['OCTime'])
replace_in_file(tmpDir +'parSmallestOverlap.F95', tmpDir +'parSmallestOverlap.F95', **cfg['FILES'])
#write config file
with open(cfg['FILES']['{prefix}']+"parameter.cfg", 'wb') as configfile:
configParser.write(configfile)
cmd = "mv "+tmpDir+"parSmallestOverlap.F95 "+baseDir+"srcOptCntrl/parSmallestOverlap.F95"
call(cmd.split())
cmd = "mv "+tmpDir+"parNvCenter.F95 "+baseDir+"srcNv/parNvCenter.F95"
call(cmd.split())
print ("compile fortran routines")
cmd = "./scripts/ifort-generateHarmonics.sh " + baseDir
call(cmd.split())
print ("invoke " +baseDir +"generateHarmonics")
cmd = baseDir+"generateHarmonics"
generateHarmonics = Popen(cmd.split(), stdin=PIPE)
cmd = "echo " + generationType
generateInput = Popen(cmd.split(), stdout=generateHarmonics.stdin)
output = generateHarmonics.communicate()[0]
generateInput.wait()
### prepare data with fortran ###
### read data for functional variation ###
__,cavityMemo,cavityRead =IOHelper.harmonics_readwrite(**cfg)
time =IOHelper.functionaltimes_readwrite(**cfg)
h0,hs_down,hs_up,hc_down,hc_up,hsep=IOHelper.read_MtrxOverlap(**cfg['FILES'])
hole =IOHelper.read_HoleData(**cfg['FILES'])
### read data for functional variation ###
### functional variation ###
print ("\nstart minimization: ")
varMax = 20
varStep = 1
success = False
#constraints for constraintWeightDown and constraintWeightUp
funcTime =float(time['tfunc'])
weight_down=float(cfg ['OCConstraints']['{temporal_weight_down}'])*funcTime/2.0
weight_up =float(cfg ['OCConstraints']['{temporal_weight_up}'])*funcTime/2.0
minContraints= ( {'type' : 'ineq', 'fun' : constraintNormRead },
{'type' : 'eq', 'fun' : constraintNormDown },
{'type' : 'eq', 'fun' : constraintNormUp },
{'type' : 'eq', 'fun' : constraintWeightDown },
{'type' : 'eq', 'fun' : constraintWeightUp },
# {'type' : 'eq', 'fun' : constraintRealMaxCoefficient },
{'type' : 'ineq', 'fun' : constraintZeroStartDown },
{'type' : 'ineq', 'fun' : constraintZeroStartUp },
{'type' : 'ineq', 'fun' : constraintPartialOverlap },
{'type' : 'ineq', 'fun' : constraintStoreUp },
{'type' : 'ineq', 'fun' : constraintStoreDownIneq },
#
# {'type' : 'ineq', 'fun' : constraintSeperateZero },
# {'type' : 'eq', 'fun' : constraintStoreDown },
# {'type' : 'eq', 'fun' : constraintHoleValue },
# {'type' : 'eq', 'fun' : constraintHoleSlope },
# {'type' : 'eq', 'fun' : constraintHoleCurv },
)
while varStep < varMax and not success :
gamma0=initGamma0()
x,x0 =initx(gamma0)
# print (" calculate sepzero to initialize vector x (method=SLSQP):")
# iteration=1
# res=minimize(seperateZeroStore, #seperateZero, # smallestAbsoluteOverlap,
# x0, #res.x,
# method='SLSQP',
# constraints=sepzeroContraints,
# tol=cfg['OCConstraints']['{tol_sepzero}'],
# options={'maxiter' : 25000, 'disp' : True},
# callback=monitor
# )
# x0=res.x
# sepZeroWeight = res.fun
# funcTime =float(time['tfunc'])
# weight=float(cfg ['OCConstraints']['{temporal_weight_limit}'])
# sepZeroWeight=weight*funcTime/2e0
print (" calculate smallest overlap of absolute values (method=SLSQP):")
iteration=1
res=minimize(seperateZero, #smallestOverlapSeperateZero, # smallestOverlapSeperatePeaks, #smallestComplxOverlap, # smallestAbsoluteOverlap, # smallestOverlapSeperateZeroPartial, #
x0,
method='SLSQP',
constraints=minContraints,
tol=cfg['OCConstraints']['{tol_classic}'],
options={'maxiter' : 25000, 'disp' : True},
callback=monitor
)
success=res.success
gamma=getGamma(res.x)
print ("")
print (" current norm(aplhaR) = " +str(sp.linalg.norm(gamma[ :nRead])))
print (" current norm(aplhaD) = " +str(sp.linalg.norm(gamma[nRead:nDown])))
print (" current norm(aplhaU) = " +str(sp.linalg.norm(gamma[nDown:nUp ])))
print (" current partial Olap = " +str(partialOverlap(res.x)))
# print (" current hole(value) = " +str(constraintHoleValue(res.x)))
# print (" current hole(slope) = " +str(constraintHoleSlope(res.x)))
# print (" current hole(value) = " +str(constraintHoleCurv(res.x)))
varStep+=1
if (success):
print ("\ndone with minimization, succeeded:")
else:
print ("\ndone with minimization, no success:")
sp.savetxt(name_vector,sp.array([gamma.real,gamma.conj().imag]).T)
# [real(gamma), imag(gamma)].conj()
cmd=baseDir+"generateOptimized"
call(cmd.split())
def main_routine (wd="./",cfg="./python/parameter.cfg",cnt=11,delay=27.725,sptype=0,phase=0.0):
### read config file ###
print ("load from config file: " + cfg)
configParser = cp.ConfigParser()
configParser.read(cfg)
print (configParser.sections())
cfg=configParser.__dict__['_sections'].copy()
#for src, target in cfg['NVSETUP'].items():
# print(src + " : " + target)
omega_c = float(cfg['NVSETUP']['{omega_c}'])
nWrite=int(cfg['OCFourier']['{write_harmonic}'])
nRead =int(cfg['OCFourier']['{read_harmonic}'])
nStore=int(cfg['MEFourier']['{storage_harmonic}'])
nDown =nRead+nWrite
nUp =nDown+nWrite
### read config file ###
### read data ###
cavityWrite,cavityMemo,cavityRead =IOHelper.harmonics_readwrite(**cfg)
time =IOHelper.functionaltimes_readwrite(**cfg)
time['write'][:] *= 1e9
time['read'][:] *= 1e9
ti = int(time['idx_ti'])
tf = int(time['idx_tf'])
functime = time['read'][ti:tf]
dt = float(time['delta_t'])
filename =IOHelper.getVectorOverlap(**cfg)
reGamma,imGamma=sp.loadtxt(filename).T
alphaR =reGamma[0:nRead] -1j*imGamma[0:nRead]
alphaD =reGamma[nRead:nDown]-1j*imGamma[nRead:nDown]
alphaU =reGamma[nDown:nUp] -1j*imGamma[nDown:nUp]
### read data ###
### plotting
Reg1Up = sp.dot(alphaU.conj(),cavityWrite)
Reg1Down = sp.dot(alphaD.conj(),cavityWrite)
Reg2Down = sp.dot(alphaD.conj(),cavityMemo)
Reg2Up = sp.dot(alphaU.conj(),cavityMemo)
Reg2Read = sp.dot(alphaR.conj(),cavityRead)
Reg2DownRead = Reg2Down + Reg2Read
Reg2UpRead = Reg2Up + Reg2Read
FuncInfo = sp.zeros([3,cnt])
FuncInfoPhase = sp.zeros([3,cnt])
FuncShiftRead = sp.zeros([3,cnt,functime.size],complex)
denom = sp.zeros([3])
# denom[0] = cumtrapz( sp.absolute(Reg2DownRead[ti:tf])**2, x=None, dx=dt )[-1]
# denom[1] = cumtrapz( sp.absolute(Reg2UpRead[ti:tf])**2, x=None, dx=dt )[-1]
denom[0] = cumtrapz( sp.absolute(Reg2UpRead[ti:tf]+Reg2DownRead[ti:tf])**2, x=None, dx=dt )[-1]
denom[1] = cumtrapz( sp.real(Reg2UpRead[ti:tf]+Reg2DownRead[ti:tf]), x=None, dx=dt )[-1]
denom[2] = cumtrapz( sp.imag(Reg2UpRead[ti:tf]+Reg2DownRead[ti:tf]), x=None, dx=dt )[-1]
# denom[0] = sp.absolute[denom[0]]
# denom[1] = sp.absolute[denom[1]]
# denom[2] = sp.absolute[denom[2]]
for i in sp.arange(0.0,cnt):
myDelay = i/(cnt-1.0)*delay
shift=sp.absolute(time['read'][:]-(functime[0]-myDelay)).argmin()-1
print myDelay,functime[0],functime[0]-myDelay,shift,time['read'][shift]
# FuncShiftRead[0,i,:] = Reg2DownRead[shift:shift+functime.size]
FuncShiftRead[0,i,:] = sp.exp(-1j*phase*sp.pi)*Reg2Down[shift:shift+functime.size] + Reg2Read[shift:shift+functime.size]
FuncShiftRead[1,i,:] = Reg2UpRead [ti:tf]
FuncShiftRead[2,i,:] = FuncShiftRead[0,i,:] + FuncShiftRead[1,i,:]
FuncInfo[0,i] = cumtrapz( sp.absolute(FuncShiftRead[2,i,:])**2, x=None, dx=dt )[-1]
FuncInfo[0,i] /= sp.absolute(denom[0])
FuncInfo[1,i] = cumtrapz( sp.real(FuncShiftRead[2,i,:]), x=None, dx=dt )[-1]
FuncInfo[1,i] /= sp.absolute(denom[1])
FuncInfo[2,i] = cumtrapz( sp.imag(FuncShiftRead[2,i,:]), x=None, dx=dt )[-1]
FuncInfo[2,i] /= sp.absolute(denom[2])
# FuncInfoIntegrand = sp.absolute(FuncSuperRead[i,:]) * sp.absolute(Reg2UpRead[ti:tf])
# FuncInfo[i,1] = cumtrapz( FuncInfoIntegrand, x=None, dx=dt )[-1]/denom[1]
# FuncInfoIntegrand = FuncSuperRead[i,:].conj() * Reg2UpRead[ti:tf]
# FuncInfoPhase[i,0] = cumtrapz( FuncInfoIntegrand.real, x=None, dx=dt )[-1]/denom[1]
# FuncInfoPhase[i,1] = cumtrapz( FuncInfoIntegrand.imag, x=None, dx=dt )[-1]/denom[1]
xx, yy = sp.meshgrid(functime,sp.linspace(0.0,delay,cnt))
xx0 = sp.linspace(0.0,delay,cnt)
# zzR = FuncSuperRead.real/FuncSuperRead.real.max()
# zzI = FuncSuperRead.imag/FuncSuperRead.imag.max()
zz0A = sp.absolute(FuncShiftRead[0,:,:])**2/((sp.absolute(FuncShiftRead[0:1,:,:])**2).max())
zz1A = sp.absolute(FuncShiftRead[1,:,:])**2/((sp.absolute(FuncShiftRead[0:1,:,:])**2).max())
zzDA = sp.absolute(FuncShiftRead[2,:,:])**2/((sp.absolute(FuncShiftRead[0:1,:,:])**2).max())
zmin = -1.5
zmax = +1.0
fs = 20
fig = plt.figure()
if sptype==0: # 3d plotting
fig0 = fig.add_subplot(231, projection='3d')
fig0.plot_surface(xx, yy, zz0A, rstride=1, cstride=5, cmap="Blues", alpha=0.5,zorder=11.0,vmin=-1, vmax=1)
fig0.contourf(xx, yy, zz0A, zdir='z', offset=zmin, cmap="Blues", vmin=-1, vmax=1,zorder=1.0)
fig0.set_zlim(zmin,zmax)
fig0.set_title("a) normalized $|A_0(t-\Delta t)|^2$",fontsize=fs)
fig0.set_xlabel("$t$ in ns",fontsize=fs)
fig0.set_ylabel("$\Delta t$ in ns.",fontsize=fs)
fig1 = fig.add_subplot(232, projection='3d')
fig1.plot_surface(xx, yy, zz1A, rstride=1, cstride=5, cmap="Reds", alpha=0.5,zorder=11.0,vmin=-1, vmax=1)
fig1.contourf(xx, yy, zz1A, zdir='z', offset=zmin, cmap="Reds", vmin=-1, vmax=1,zorder=1.0)
fig1.set_zlim(zmin,zmax)
fig1.set_title("b) normalized $|A_1(t)|^2$",fontsize=fs)
fig1.set_xlabel("$t$ in ns",fontsize=fs)
fig1.set_ylabel("$\Delta t$ in ns.",fontsize=fs)
fig2 = fig.add_subplot(233, projection='3d')
fig2.plot_surface(xx, yy, zzDA, rstride=1, cstride=5, cmap="Greens", alpha=0.5,zorder=11.0,vmin=-1, vmax=4)
fig2.contourf(xx, yy, zzDA, zdir='z', offset=zmin, cmap="Greens", vmin=-1, vmax=4,zorder=1.0)
fig2.set_zlim(zmin,4*zmax)
fig2.set_title("c) normalized $|A_0(t-\Delta t)-A_1(t)|^2$",fontsize=fs)
fig2.set_xlabel("$t$ in ns",fontsize=fs)
fig2.set_ylabel("$\Delta t$ in ns.",fontsize=fs)
else :
pltId=(cnt-1)/2
yMax = round(max(max(zzDA[0,:]),max(zzDA[pltId,:]),max(zzDA[-1,:]))) + 0.5
yMin = min(min(zzDA[0,:]),min(zzDA[pltId,:]),min(zzDA[-1,:]))
plt.subplot2grid((2,3),(0,0))
plt.title("a) no delay, $\Delta t=0$",fontsize=fs)
plt.plot(functime,zzDA[0,:],linewidth="2",color="black")
plt.xlabel("$t$ in ns",fontsize=fs)
plt.ylabel("$|A_0(t-\Delta t) + A_1(t)|^2$ in a.u.",fontsize=fs)
plt.xlim(min(functime),max(functime))
plt.ylim(yMin,yMax)
plt.subplot2grid((2,3),(0,1))
plt.title("b) medium delay, $\Delta t=\Delta t_{max}/2=$"+"{:}ns".format(pltId/(cnt-1.0)*delay),fontsize=fs)
plt.plot(functime,zzDA[pltId,:],linewidth="2",color="black")
plt.xlabel("$t$ in ns",fontsize=fs)
plt.xlim(min(functime),max(functime))
plt.ylim(yMin,yMax)
plt.subplot2grid((2,3),(0,2))
plt.title("c) maximal delay, $\Delta t=\Delta t_{max}=$"+"{:}ns".format(delay),fontsize=fs)
plt.plot(functime,zzDA[-1,:],linewidth="2",color="black")
plt.xlabel("$t$ in ns",fontsize=fs)
plt.xlim(min(functime),max(functime))
plt.ylim(yMin,yMax)
plt.subplot2grid((2,3),(1,0))
plt.plot(xx0,FuncInfo[1,:],linewidth="2",color="red")
plt.title("d) area under $Re[A_0(t-\Delta t)+A_1(t)]$",fontsize=fs)
plt.xlabel("$\Delta t$ in ns",fontsize=fs)
plt.xlim(min(xx0),max(xx0))
plt.subplot2grid((2,3),(1,1))
plt.plot(xx0,FuncInfo[2,:],linewidth="2",color="magenta")
plt.title("e) area under $Im[A_0(t-\Delta t)+A_1(t)]$",fontsize=fs)
plt.xlabel("$\Delta t$ in ns",fontsize=fs)
plt.xlim(min(xx0),max(xx0))
plt.subplot2grid((2,3),(1,2))
plt.plot(xx0,FuncInfo[0,:],linewidth="2",color="green")
plt.title("f) area under $|A_0(t-\Delta t)+A_1(t)|^2$",fontsize=fs)
plt.xlabel("$\Delta t$ in ns",fontsize=fs)
plt.xlim(min(xx0),max(xx0))
# FuncInfoPhase[:,0]-=min(FuncInfoPhase[:,0])
# FuncInfoPhase[:,0]/=0.5*max(sp.absolute(FuncInfoPhase[:,0]))
# FuncInfoPhase[:,0]-=1.0
# FuncInfoPhase[:,1]-=min(FuncInfoPhase[:,1])
# FuncInfoPhase[:,1]/=0.5*max(sp.absolute(FuncInfoPhase[:,1]))
# FuncInfoPhase[:,1]-=1.0
# plt.subplot2grid((2,3),(1,2),colspan=1,rowspan=1)
# plt.plot(sp.linspace(0.0,2.0,cnt),FuncInfoPhase[:,0],linewidth="2",color="red")
# plt.plot(sp.linspace(0.0,2.0,cnt),FuncInfoPhase[:,1],linewidth="2",color="magenta")
# plt.title("f) $O_{\mathbb{C}}$ scaled & translated, $(O_{\mathbb{C}}($'$1$'$)-I_R)/I_0$",fontsize=fs)
## plt.title("$\\frac{1}{N}\int_{T_{{\cal F}1}}^{T_{{\cal F}2}}dt\,A_0(t;\phi_0)^*\cdot A_1(t)$ scaled & translated",fontsize=fs)
# plt.xlabel("$\phi_0/\pi$",fontsize=fs)
# plt.ylim(-1,1)
## myPhase = sp.zeros([cnt,2])
## for i in sp.arange(0,cnt):
## myPhase[i,0]=acos(FuncInfoPhase[i,0])/sp.pi
## myPhase[i,1]=acos(FuncInfoPhase[i,1])/sp.pi
## plt.subplot2grid((2,3),(1,2),colspan=1,rowspan=1)
## plt.plot(sp.linspace(0.0,2.0,cnt),myPhase[:,0])
## plt.plot(sp.linspace(0.0,2.0,cnt),myPhase[:,1])
#
## fig0.plot(memo_times[:], fitness[:,conf[pltId]], zs=tmax, zdir='y',lw=1.5, color="green")
plt.show()
def main_routine (wd="./",cfg="./python/parameter.cfg",gammaCnt=11,bloch=0,myMap="custom",project=0):
### read config file ###
print ("load from config file: " + cfg)
configParser = cp.ConfigParser()
configParser.read(cfg)
print (configParser.sections())
cfg=configParser.__dict__['_sections'].copy()
#for src, target in cfg['NVSETUP'].items():
# print(src + " : " + target)
omega_c = float(cfg['NVSETUP']['{omega_c}'])
nWrite=int(cfg['OCFourier']['{write_harmonic}'])
nRead =int(cfg['OCFourier']['{read_harmonic}'])
nStore=int(cfg['MEFourier']['{storage_harmonic}'])
nDown =nRead+nWrite
nUp =nDown+nWrite
### read config file ###
### read data ###
cavityWrite,cavityMemo,cavityRead =IOHelper.harmonics_readwrite(**cfg)
time =IOHelper.functionaltimes_readwrite(**cfg)
time['write'][:] *= 1e9
time['read'][:] *= 1e9
ti = int(time['idx_ti'])
tf = int(time['idx_tf'])
functime = time['read'][ti:tf]
dt = float(time['delta_t'])
filename =IOHelper.getVectorOverlap(**cfg)
reGamma,imGamma=sp.loadtxt(filename).T
alphaR =reGamma[0:nRead] -1j*imGamma[0:nRead]
alphaD =reGamma[nRead:nDown]-1j*imGamma[nRead:nDown]
alphaU =reGamma[nDown:nUp] -1j*imGamma[nDown:nUp]
### read data ###
### plotting
Reg1Up = sp.dot(alphaU.conj(),cavityWrite)
Reg1Down = sp.dot(alphaD.conj(),cavityWrite)
Reg2Down = sp.dot(alphaD.conj(),cavityMemo)
Reg2Up = sp.dot(alphaU.conj(),cavityMemo)
Reg2Read = sp.dot(alphaR.conj(),cavityRead)
Reg2DownRead = Reg2Down + Reg2Read
Reg2UpRead = Reg2Up + Reg2Read
myDensity = sp.zeros([functime.size,gammaCnt])
FuncCavity = sp.zeros([functime.size,gammaCnt],complex)
spos = sp.zeros([2,gammaCnt])
FuncInfoOlap = sp.zeros([2,gammaCnt],complex)
I00 = cumtrapz( sp.real(Reg2DownRead[ti:tf] * Reg2DownRead[ti:tf].conj()), x=None, dx=dt )[-1]
I11 = cumtrapz( sp.real(Reg2UpRead[ti:tf] * Reg2UpRead[ti:tf].conj()), x=None, dx=dt )[-1]
for g in sp.arange(0.0,gammaCnt):
gamma = g/(gammaCnt-1.0)
myDensity[:,g]=1.0-gamma
spos[0,g] = gamma
spos[1,g] = 1.0-gamma
FuncCavity[:,g] = spos[0,g]*Reg2Down[ti:tf] + spos[1,g]*Reg2Up[ti:tf]
FuncCavity[:,g] += Reg2Read [ti:tf]
FuncInfoOlap [0,g] = cumtrapz( (FuncCavity[:,g] * Reg2DownRead[ti:tf].conj()).real, x=None, dx=dt )[-1]
FuncInfoOlap [0,g] += 1j*cumtrapz( (FuncCavity[:,g] * Reg2DownRead[ti:tf].conj()).imag, x=None, dx=dt )[-1]
FuncInfoOlap [0,g] /= I00
FuncInfoOlap [0,g] = sp.absolute(FuncInfoOlap [0,g])
FuncInfoOlap [1,g] = cumtrapz( (FuncCavity[:,g] * Reg2UpRead[ti:tf].conj()).real, x=None, dx=dt )[-1]
FuncInfoOlap [1,g] += 1j*cumtrapz( (FuncCavity[:,g] * Reg2UpRead[ti:tf].conj()).imag, x=None, dx=dt )[-1]
FuncInfoOlap [1,g] /= I11
FuncInfoOlap [1,g] = sp.absolute(FuncInfoOlap [1,g])
# FuncInfoOlap [0,g] = cumtrapz( sp.absolute(FuncCavity[:,g]) * sp.absolute(Reg2DownRead[ti:tf].conj()), x=None, dx=dt )[-1]
# FuncInfoOlap [0,g] /= I00
# FuncInfoOlap [1,g] = cumtrapz( sp.absolute(FuncCavity[:,g]) * sp.absolute(Reg2UpRead[ti:tf].conj()), x=None, dx=dt )[-1]
# FuncInfoOlap [1,g] /= I11
fig = plt.figure()
fs = 22
label_size = 20
plt.rcParams['xtick.labelsize'] = label_size
plt.rcParams['ytick.labelsize'] = label_size
xx, yy = sp.meshgrid(sp.linspace(0.0,1.0,gammaCnt),functime)
zmax = (sp.absolute(FuncCavity)**2).max()
c = mcolors.ColorConverter().to_rgb
if myMap =="custom" :
cm = make_colormap(
[c('blue'), c('purple'), c('red')])
else:
cm = plt.cm.get_cmap(myMap)
myColors = cm(myDensity)
fig1 = fig.add_subplot(111, projection='3d')
fig1.plot(spos[0,:], FuncInfoOlap [0,:].real, zs=functime[ project], zdir='y',lw=2.5, color="blue",label="$\gamma^{\prime}$",zorder=0.1)
fig1.plot(spos[0,:], FuncInfoOlap [1,:].real, zs=functime[ project], zdir='y',lw=2.5, color="red" ,label="$\delta^{\prime}$",zorder=0.1)
fig1.plot_surface(xx, yy, sp.absolute(FuncCavity)**2/zmax,rstride=1, cstride=1,alpha=1,facecolors=myColors, antialiased=False)
fig1.plot_wireframe(xx, yy, sp.absolute(FuncCavity)**2/zmax, rstride=15, cstride=3,alpha=1,linewidth=1,color="black")
fig1.legend(fontsize=fs)
fig1.set_zlim(0,1.1)
fig1.set_ylim(functime[0],functime[-1])
fig1.set_xticks([0,0.5,1])
fig1.set_yticks([55,75,95])
fig1.set_zticks([0,0.5,1])
fig1.set_xlim(0,1)
fig1.set_zlabel("$|A(t)|^2$",fontsize=fs)
fig1.set_ylabel("$t$ in ns",fontsize=fs)
fig1.set_xlabel("$\gamma$",fontsize=fs)
fig1.xaxis._axinfo['label']['space_factor'] = 2.0
fig1.yaxis._axinfo['label']['space_factor'] = 2.0
fig1.zaxis._axinfo['label']['space_factor'] = 2.0
# m.set_array(myDensity)
# plt.colorbar(m,shrink=0.5,aspect=7)
plt.show()
def main_routine (wd="./",cfg="./python/parameter.cfg",cnt=11,sptype=1,myCmap="RdYlBu"):
### read config file ###
print ("load from config file: " + cfg)
configParser = cp.ConfigParser()
configParser.read(cfg)
print (configParser.sections())
cfg=configParser.__dict__['_sections'].copy()
#for src, target in cfg['NVSETUP'].items():
# print(src + " : " + target)
omega_c = float(cfg['NVSETUP']['{omega_c}'])
nWrite=int(cfg['OCFourier']['{write_harmonic}'])
nRead =int(cfg['OCFourier']['{read_harmonic}'])
nStore=int(cfg['MEFourier']['{storage_harmonic}'])
nDown =nRead+nWrite
nUp =nDown+nWrite
### read config file ###
### read data ###
cavityWrite,cavityMemo,cavityRead =IOHelper.harmonics_readwrite(**cfg)
time =IOHelper.functionaltimes_readwrite(**cfg)
time['write'][:] *= 1e9
time['read'][:] *= 1e9
ti = int(time['idx_ti'])
tf = int(time['idx_tf'])
functime = time['read'][ti:tf]
dt = float(time['delta_t'])
filename =IOHelper.getVectorOverlap(**cfg)
reGamma,imGamma=sp.loadtxt(filename).T
alphaR =reGamma[0:nRead] -1j*imGamma[0:nRead]
alphaD =reGamma[nRead:nDown]-1j*imGamma[nRead:nDown]
alphaU =reGamma[nDown:nUp] -1j*imGamma[nDown:nUp]
### read data ###
### plotting
Reg1Up = sp.dot(alphaU.conj(),cavityWrite)
Reg1Down = sp.dot(alphaD.conj(),cavityWrite)
Reg2Down = sp.dot(alphaD.conj(),cavityMemo)
Reg2Up = sp.dot(alphaU.conj(),cavityMemo)
Reg2Read = sp.dot(alphaR.conj(),cavityRead)
Reg2DownRead = Reg2Down + Reg2Read
Reg2UpRead = Reg2Up + Reg2Read
FuncInfo = sp.zeros([cnt,2])
FuncInfoPhase = sp.zeros([cnt,2])
FuncSuperRead = sp.zeros([cnt,functime.size],complex)
denom = sp.zeros([2])
denom[0] = cumtrapz( sp.absolute(Reg2DownRead[ti:tf])**2, x=None, dx=dt )[-1]
denom[1] = cumtrapz( sp.absolute(Reg2UpRead[ti:tf])**2, x=None, dx=dt )[-1]
for i in sp.arange(0.0,cnt):
phi = i*2.0/(cnt-1.0)
Reg1Super = superimpose(Reg1Down,Reg1Up,phi,sptype)
Reg2Super = superimpose(Reg2Down,Reg2Up,phi,sptype)
Reg2SuperRead = Reg2Super + Reg2Read
FuncSuperRead[i,:] = Reg2SuperRead[ti:tf]
FuncInfoIntegrand = sp.absolute(FuncSuperRead[i,:]) * sp.absolute(Reg2DownRead[ti:tf])
FuncInfo[i,0] = cumtrapz( FuncInfoIntegrand, x=None, dx=dt )[-1]/denom[0]
FuncInfoIntegrand = sp.absolute(FuncSuperRead[i,:]) * sp.absolute(Reg2UpRead[ti:tf])
FuncInfo[i,1] = cumtrapz( FuncInfoIntegrand, x=None, dx=dt )[-1]/denom[1]
FuncInfoIntegrand = FuncSuperRead[i,:].conj() * Reg2UpRead[ti:tf]
FuncInfoPhase[i,0] = cumtrapz( FuncInfoIntegrand.real, x=None, dx=dt )[-1]/denom[1]
FuncInfoPhase[i,1] = cumtrapz( FuncInfoIntegrand.imag, x=None, dx=dt )[-1]/denom[1]
xx, yy = sp.meshgrid(functime,sp.linspace(0.0,2.0,cnt))
zzR = FuncSuperRead.real/FuncSuperRead.real.max()
zzI = FuncSuperRead.imag/FuncSuperRead.imag.max()
zzA = sp.absolute(FuncSuperRead)**2/((sp.absolute(FuncSuperRead)**2).max())
zmin = -1.5
zmax = +1.0
fs = 20
cm = plt.cm.get_cmap(myCmap)
myColors = cm(zzR)
fig = plt.figure()
fig0 = fig.add_subplot(231, projection='3d')
fig0.plot_surface(xx, yy, zzA, rstride=10, cstride=5, cmap=cm, alpha=0.5,zorder=11.0,vmin=-1, vmax=1)
fig0.contourf(xx, yy, zzA, zdir='z', offset=zmin, cmap=cm, vmin=-1, vmax=1,zorder=1.0)
fig0.set_zlim(zmin,zmax)
fig0.set_title("a) normalized $|A_0(t;\phi_0)|^2$",fontsize=fs)
fig0.set_xlabel("$t$ in ns",fontsize=fs)
fig0.set_ylabel("$\phi_0/\pi$",fontsize=fs)
fig1 = fig.add_subplot(232, projection='3d')
fig1.plot_surface(xx, yy, zzR, rstride=10, cstride=5, cmap=cm, alpha=0.5,zorder=11.0,vmin=-1, vmax=1)
fig1.contourf(xx, yy, zzR, zdir='z', offset=zmin, cmap=cm, vmin=-1, vmax=1,zorder=1.0)
fig1.set_zlim(zmin,zmax)
fig1.set_title("b) normalized $Re[\,A_0(t;\phi_0)\,]$",fontsize=fs)
fig1.set_xlabel("$t$ in ns",fontsize=fs)
fig1.set_ylabel("$\phi_0/\pi$",fontsize=fs)
fig2 = fig.add_subplot(233, projection='3d')
fig2.plot_surface(xx, yy, zzI, rstride=10, cstride=5, cmap=cm, alpha=0.5,zorder=11.0,vmin=-1, vmax=1)
fig2.contourf(xx, yy, zzI, zdir='z', offset=zmin, cmap=cm, vmin=-1, vmax=1,zorder=1.0)
fig2.set_zlim(zmin,zmax)
fig2.set_title("c) normalized $Im[\,A_0(t;\phi_0)\,]$",fontsize=fs)
fig2.set_xlabel("$t$ in ns",fontsize=fs)
fig2.set_ylabel("$\phi_0/\pi$",fontsize=fs)
plt.subplot2grid((2,3),(1,0),colspan=1,rowspan=1)
plt.plot(sp.linspace(0.0,2.0,cnt),FuncInfo[:,0],label="overlap with $i=$'$0$'",linewidth="2",color="blue")
plt.plot(sp.linspace(0.0,2.0,cnt),FuncInfo[:,1],label="overlap with $i=$'$1$'",linewidth="2",color="red")
plt.ylim(0,1.1)
plt.xlabel("$\phi_0/\pi$",fontsize=fs)
plt.legend(bbox_to_anchor=(0.52, 0.0), loc=3, borderaxespad=0.)
plt.title("d) classical overlap, $O_{\mathbb{R}}(i)$",fontsize=fs)
# plt.title("$\\frac{1}{N}\int_{T_{{\cal F}1}}^{T_{{\cal F}2}}dt\,|A_0(t;\phi_0)|\cdot|A_i(t)|$",fontsize=fs)
# FuncInfoPhase[:,0]-=min(FuncInfoPhase[:,0])
# FuncInfoPhase[:,0]/=0.5*max(sp.absolute(FuncInfoPhase[:,0]))
# FuncInfoPhase[:,0]-=1.0
# FuncInfoPhase[:,1]-=min(FuncInfoPhase[:,1])
# FuncInfoPhase[:,1]/=0.5*max(sp.absolute(FuncInfoPhase[:,1]))
# FuncInfoPhase[:,1]-=1.0
plt.subplot2grid((2,3),(1,1),colspan=1,rowspan=1)
plt.plot(sp.linspace(0.0,2.0,cnt),FuncInfoPhase[:,0],label="Re[ $O_{\mathbb{C}}($'$1$'$)$ ]",linewidth="2",color="red")
plt.plot(sp.linspace(0.0,2.0,cnt),FuncInfoPhase[:,1],label="Im[ $O_{\mathbb{C}}($'$1$'$)$ ]",linewidth="2",color="magenta")
plt.title("e) complex overlap, $O_{\mathbb{C}}($'$1$'$)$",fontsize=fs)
# plt.title("$\\frac{1}{N}\int_{T_{{\cal F}1}}^{T_{{\cal F}2}}dt\,A_0(t;\phi_0)^*\cdot A_1(t)$",fontsize=fs)
plt.xlabel("$\phi_0/\pi$",fontsize=fs)
plt.legend(bbox_to_anchor=(0.66, 0.0), loc=3, borderaxespad=0.)
plt.ylim(-1,1.1)
FuncInfoPhase[:,0]-=min(FuncInfoPhase[:,0])
FuncInfoPhase[:,0]/=0.5*max(sp.absolute(FuncInfoPhase[:,0]))
FuncInfoPhase[:,0]-=1.0
FuncInfoPhase[:,1]-=min(FuncInfoPhase[:,1])
FuncInfoPhase[:,1]/=0.5*max(sp.absolute(FuncInfoPhase[:,1]))
FuncInfoPhase[:,1]-=1.0
# plt.subplot2grid((2,3),(1,2),colspan=1,rowspan=1)
# plt.plot(sp.linspace(0.0,2.0,cnt),FuncInfoPhase[:,0],linewidth="2",color="red")
# plt.plot(sp.linspace(0.0,2.0,cnt),FuncInfoPhase[:,1],linewidth="2",color="magenta")
# plt.title("f) $O_{\mathbb{C}}$ scaled & translated, $(O_{\mathbb{C}}($'$1$'$)-I_R)/I_0$",fontsize=fs)
# plt.xlabel("$\phi_0/\pi$",fontsize=fs)
# plt.ylim(-1,1)
plt.show()
def main_routine (wd="./",cfg="./python/parameter.cfg",generationType="p",\
toMinimize =2,\
cavityMatch=1,\
silent=0,\
useBeta=0,\
cutoff=10000,dimGrid=11,id0=0,id1=1,id2=2,pltId='funval',pltLim=1000,pltBins=40,myCmap="brg"):
print "#################################################################"
print "#################################################################"
print "### optimal control #############################################"
print "### memory pulse evaluation #####################################"
print "#################################################################"
print "#################################################################"
### globals for functional variation
global cons, fun, dim, conf
conf['toMinimize'] =toMinimize
conf['cavityMatch']=cavityMatch
conf['silent'] =silent
if (useBeta == 0):
conf['useBeta'] = False
else:
conf['useBeta'] = True
conf['id0'] =id0
conf['id1'] =id1
conf['id2'] =id2
conf['cutoff'] =cutoff
### globals for functional variation
### generate working environment ###
print ("### working directory: " + wd)
tmpDir = wd+"tmp/"
cmd = "mkdir -p " + tmpDir
call(cmd.split())
### generate working environment ###
### read config file ###
print ("### load config file: " + cfg)
configParser = cp.ConfigParser()
configParser.read(cfg)
print (configParser.sections())
cfg=configParser.__dict__['_sections'].copy()
conf['MEConstraints'] = cfg['MEConstraints'].copy()
conf['FITNESS']= cfg['FITNESS'].copy()
conf['FITNESS']['{mutationrate}']=sp.zeros([conf['entries']])
conf['FITNESS']['{mutationrate}'][conf['funval']] =cfg['FITNESS']['{mut_functional}']
conf['FITNESS']['{mutationrate}'][conf['fidelity_down']]=cfg['FITNESS']['{mut_fidelity_down}']
conf['FITNESS']['{mutationrate}'][conf['fidelity_up']] =cfg['FITNESS']['{mut_fidelity_up}']
conf['FITNESS']['{mutationrate}'][conf['memolap']] =cfg['FITNESS']['{mut_memolap}']
conf['FITNESS']['{mutationrate}'][conf['alpha']] =cfg['FITNESS']['{mut_alpha}']
conf['FITNESS']['{mutationrate}'][conf['beta']] =cfg['FITNESS']['{mut_beta}']
conf['FITNESS']['{mutationrate}'][conf['success']] =cfg['FITNESS']['{mut_success}']
cons['alpha_norm']=float(cfg['MEConstraints']["{storage_amplitude}"])
cons['beta_low'] =float(cfg['MEConstraints']["{limit_low_beta}"])
cons['beta_top'] =float(cfg['MEConstraints']["{limit_top_beta}"])
cons['chi2_Tol'] =float(cfg['MEConstraints']['{tol_chi2}'])
dim['alpha']=int(cfg['MEFourier']['{storage_harmonic}'])
dim['total']=dim['alpha']+3
prefix =cfg['FILES']['{prefix}']
postfix =cfg['FILES']['{postfix}']
name_optimized=cfg['FILES']['{name_optimized}']
name_spin =cfg['FILES']['{name_spin}']
name_cavity =cfg['FILES']['{name_cavity}']
cfg['dim_grid'] =dimGrid
name_readwrite=IOHelper.getNameReadWrite(**cfg)
name_storage =IOHelper.getNameStorage (**cfg)
name_varinit =IOHelper.getNameInitialVariation (**cfg)
myTime =IOHelper.functionaltimes_readwrite(**cfg) # reads time and updates cfg:
# cfg['METime']['{fidelity_ti}'] = myTime['idx_ti']
# cfg['METime']['{fidelity_tf}'] = myTime['idx_tf']
gridPhi =sp.linspace(0.0, 2.0*sp.pi, num=2*dimGrid-1)
gridTheta =sp.linspace(0.0, sp.pi, num=dimGrid)
minfun =sp.zeros([len(gridPhi),len(gridTheta),conf['entries']+3])
if (generationType == "p"):
print "## read from file: " + name_varinit
raw = sp.loadtxt(name_varinit)
minfun = raw.reshape(len(gridPhi),len(gridTheta),conf['entries']+3)
for i in sp.arange(0,len(gridPhi),1):
for j in sp.arange(0,len(gridTheta),1):
minfun[i,j,conf['fitness']] = MemoryPulseFunctional.fitnessFunction(minfun[i,j,:])
else:
### prepare and complie fortran routines ###
print ("### prepare fortran routines")
replace_in_file('./python/py.parNvCenter.F95' , tmpDir +'parNvCenter.F95' , **cfg['NVSETUP'])
replace_in_file('./python/py.parMemoryPulse.F95', tmpDir +'parMemoryPulse.F95', **cfg['MEFourier'])
replace_in_file(tmpDir +'parMemoryPulse.F95' , tmpDir +'parMemoryPulse.F95', **cfg['OCFourier'])
replace_in_file(tmpDir +'parMemoryPulse.F95' , tmpDir +'parMemoryPulse.F95', **cfg['MESpin'])
replace_in_file(tmpDir +'parMemoryPulse.F95' , tmpDir +'parMemoryPulse.F95', **cfg['MEConstraints'])
replace_in_file(tmpDir +'parMemoryPulse.F95' , tmpDir +'parMemoryPulse.F95', **cfg['OCConstraints'])
replace_in_file(tmpDir +'parMemoryPulse.F95' , tmpDir +'parMemoryPulse.F95', **cfg['METime'])
replace_in_file(tmpDir +'parMemoryPulse.F95' , tmpDir +'parMemoryPulse.F95', **cfg['OCTime'])
replace_in_file(tmpDir +'parMemoryPulse.F95' , tmpDir +'parMemoryPulse.F95', **cfg['FILES'])
#write config file
with open(prefix+"parameter.cfg", 'wb') as configfile:
configParser.write(configfile)
### read config file ###
print ("### compile fortran routines")
cmd = "mv "+tmpDir+"parMemoryPulse.F95 "+wd+"srcOptCntrl/parMemoryPulse.F95"
call(cmd.split())
cmd = "mv "+tmpDir+"parNvCenter.F95 "+wd+"srcNv/parNvCenter.F95"
call(cmd.split())
cmd = "./scripts/ifort-memoryHarmonics.sh " + wd
call(cmd.split())
print ("### invoke fortran routines")
print ("### generation Type: " + generationType)
cmd = wd+"memoryHarmonics" # location of executable fortran program
generateHarmonics = Popen(cmd.split(), stdin=PIPE) # run fortran program with piped standard input
cmd = "echo " + generationType # communication with fortran-routine: chose action -> read or generate
generateInput = Popen(cmd.split(), stdout=generateHarmonics.stdin) # send action to fortran program
output = generateHarmonics.communicate()[0]
generateInput.wait()
### prepare and complie fortran routines ###
### read data for functional variation ###
cons['cavityT2_down'], \
cons['cavityT2_up'] = IOHelper.read_CavityMemory (**cfg['FILES'])
fun ['mtrxBeta_up'], \
cons['vecT2_up'] , \
cons['fidelity_up'], \
cons['mtrxMemOlap'] = IOHelper.read_MtrxMemory("up", **cfg['FILES'])
fun ['mtrxBeta_down'], \
cons['vecT2_down'] , \
cons['fidelity_down'], \
__ = IOHelper.read_MtrxMemory("down", **cfg['FILES'])
### read data for functional variation ###
### functional variation ###
print ("\n### start minimization: ")
print ("### on initial "+ str(sp.shape(minfun)[0])+"x"+str(sp.shape(minfun)[1]) + "-grid (phi,theta) on sphere")
mincnt=0
cntPhi =0
t0=0
tcnt=len(gridTheta)
for phi in gridPhi[0:len(gridPhi)-1]:
theta_i=0
if(cntPhi > 0):
t0=1
tcnt=len(gridTheta)-1
theta_i=1
### parallel evaluation with <cpu_count()> cores ###################################
pool = multiprocessing.Pool(processes=multiprocessing.cpu_count())
results = [ pool.apply_async(evaluateSphericalVariation, args=(phi,theta,cntPhi,cntTheta))
for theta,cntTheta in zip(gridTheta[t0:tcnt],sp.arange(t0,tcnt,1)) ]
for p in results:
myResult,i,j =p.get()
minfun[i,j,:]=myResult
#kill multiprocessing pool !!!
pool.terminate()
### parallel evaluation with <cpu_count()> cores ###################################
### sequentiell evaluateion 1 core #################################################
# for theta in gridTheta[t0:tcnt]:
# minfun[cntPhi,theta_i,:],__,__=MemoryPulseFunctional.evaluateSphericalVariation (phi,theta,cntPhi,theta_i)
# theta_i+=1
### sequentiell evaluateion 1 core #################################################
cntPhi=cntPhi+1
# end for phi
minfun[ :, 0,:]=minfun[0, 0,:] # theta=0 : same vector on unit-sphere
minfun[ :,-1,:]=minfun[0,-1,:] # theta=pi : same vector on unit-sphere
minfun[-1, :,:]=minfun[0, :,:] # periodic
print "\n### write to file: " + name_varinit
sp.savetxt(name_varinit,minfun.reshape((len(gridPhi)*len(gridTheta),conf['entries']+3)),\
header=' alpha0['+str(id0)+']; alpha0['+str(id1)+']; alpha0['+str(id2)+'];'\
+' fitness; success; norm[alpha]; abs[beta]; memolap; fidelity_up; fidelity_down; minfun')
print "#################################################################"
print "#################################################################"
font = {
'fontsize' : 26,
}
mytitle=MemoryPulseFunctional.getName(pltId)
### prepare surface_plot ###############################################################
x = outer(cos(gridPhi), sin(gridTheta))
y = outer(sin(gridPhi), sin(gridTheta))
z = outer(ones(size(gridPhi)), cos(gridTheta))
myDensity=sp.zeros([len(gridPhi),len(gridTheta)])
for i in sp.arange(0,len(gridPhi),1):
for j in sp.arange(0,len(gridTheta),1):
if (minfun[i,j,conf[pltId]] >= pltLim):
myDensity[i,j] = pltLim+1
else:
myDensity[i,j] = minfun[i,j,conf[pltId]]
# "afmhot", "hot", "terrain", "brg"
cm = plt.cm.get_cmap(myCmap)
myColors = cm(myDensity/pltLim)
### prepare surface_plot ###############################################################
### prepare colormap ###################################################################
fig0_colors=sp.linspace(0,pltLim,pltBins)
### prepare colormap ###################################################################
### prepare histogram ##################################################################
yHist,xHist = sp.histogram(myDensity.flatten(),pltBins)
# xSpan = pltxHist.max()-xHist.min()
# Color = [cm(((ix-xHist.min())/xSpan)) for ix in xHist]
Color = [cm(((ix)/pltLim)) for ix in xHist]
### prepare histogram ##################################################################
### calculate fittest solutions ########################################################
cntFit = 0
for i in sp.arange(0,len(gridPhi),1):
for j in sp.arange(0,len(gridTheta),1):
if minfun[i,j,conf['fitness']] != 0.0 :
cntFit+=1
if (minfun[i,j,conf[pltId]] >= pltLim):
myDensity[i,j] = pltLim
else:
myDensity[i,j] = minfun[i,j,conf[pltId]]
if (cntFit > 0):
fitAlpha =sp.zeros([cntFit,int(cfg['MEFourier']['{storage_harmonic}'])])
cntFit = 0
for i in sp.arange(0,len(gridPhi),1):
for j in sp.arange(0,len(gridTheta),1):
if minfun[i,j,conf['fitness']] != 0.0 :
print minfun[i,j,3:]
fitAlpha[cntFit,conf['id0']]=minfun[i,j,0]
fitAlpha[cntFit,conf['id1']]=minfun[i,j,1]
fitAlpha[cntFit,conf['id2']]=minfun[i,j,2]
cntFit+=1
name_fittest=IOHelper.getNameInitialFittest(**cfg)
print "\n### write fittest to file: " + name_fittest
sp.savetxt(name_fittest,fitAlpha,\
header='# alpha0[0] ... alpha0[n]')
print "### fitness counter: {0:} of {1:}".format(cntFit,sp.shape(minfun)[0]*sp.shape(minfun)[1])
### calculate fittest solutions ########################################################
fig = plt.figure()
### plot surface_plot ##################################################################
fig3D = fig.add_subplot(131, projection='3d')
surf = fig3D.plot_surface(x, y, z, rstride=1, cstride=1,facecolors=myColors)
fig3D.plot(cos(gridPhi), sin(gridPhi), zs=0, zdir='z',lw=0.5, color="black")
fig3D.plot(cos(gridPhi), sin(gridPhi), zs=0, zdir='x',lw=0.5, color="black")
fig3D.set_xlabel("$\\alpha_{:}$".format(id0), **font)
fig3D.set_ylabel("$\\alpha_{:}$".format(id1), **font)
fig3D.set_zlabel("$\\alpha_{:}$".format(id2), **font)
fig3D.set_title("a) 4d-plot of "+mytitle, fontsize = 20)
### plot surface_plot ##################################################################
### plot colormap ######################################################################
fig0 = fig.add_subplot(132)
fig0.invert_yaxis()
cp0=fig0.contourf(gridPhi/sp.pi,gridTheta/sp.pi,minfun[:,:,conf[pltId]].T,fig0_colors,cmap=cm)
plt.colorbar(cp0)
fig0.set_xlabel("$\phi/\pi$", **font)
fig0.set_ylabel("$\\theta/\pi$", **font)
fig0.set_title("b) map of "+mytitle, fontsize = 20)
### plot colormap ######################################################################
### plot histogram #####################################################################
figBar=fig.add_subplot(133)
figBar.bar(xHist[:-1],yHist,color=Color,width=xHist[1]-xHist[0])
figBar.set_xlim([0,pltLim])
figBar.set_ylim([0,max(yHist[0:len(yHist)-1])])
figBar.set_xlabel(mytitle, fontsize=20)
figBar.set_ylabel("count", fontsize=20)
figBar.set_title("c) histogram", fontsize = 20)
### plot histogram #####################################################################
plt.show()
def main_routine (wd="./",cfg="./python/parameter.cfg",thetaCnt=11,phiCnt=11,p3d=0,myMap="rainbow"):
### read config file ###
print ("load from config file: " + cfg)
configParser = cp.ConfigParser()
configParser.read(cfg)
print (configParser.sections())
cfg=configParser.__dict__['_sections'].copy()
#for src, target in cfg['NVSETUP'].items():
# print(src + " : " + target)
omega_c = float(cfg['NVSETUP']['{omega_c}'])
nWrite=int(cfg['OCFourier']['{write_harmonic}'])
nRead =int(cfg['OCFourier']['{read_harmonic}'])
nStore=int(cfg['MEFourier']['{storage_harmonic}'])
nDown =nRead+nWrite
nUp =nDown+nWrite
### read config file ###
### read data ###
cavityWrite,cavityMemo,cavityRead =IOHelper.harmonics_readwrite(**cfg)
time =IOHelper.functionaltimes_readwrite(**cfg)
time['write'][:] *= 1e9
time['read'][:] *= 1e9
ti = int(time['idx_ti'])
tf = int(time['idx_tf'])
functime = time['read'][ti:tf]
dt = float(time['delta_t'])
filename =IOHelper.getVectorOverlap(**cfg)
reGamma,imGamma=sp.loadtxt(filename).T
alphaR =reGamma[0:nRead] -1j*imGamma[0:nRead] # /float(cfg['OCConstraints']['{amplitude_up}'])
alphaD =reGamma[nRead:nDown]-1j*imGamma[nRead:nDown] # /float(cfg['OCConstraints']['{amplitude_down}'])
alphaU =reGamma[nDown:nUp] -1j*imGamma[nDown:nUp] # /float(cfg['OCConstraints']['{amplitude_read}'])
### read data ###
### plotting
Reg1Up = sp.dot(alphaU.conj(),cavityWrite)
Reg1Down = sp.dot(alphaD.conj(),cavityWrite)
Reg2Down = sp.dot(alphaD.conj(),cavityMemo)
Reg2Up = sp.dot(alphaU.conj(),cavityMemo)
Reg2Read = sp.dot(alphaR.conj(),cavityRead)
Reg2DownRead = Reg2Down + Reg2Read
Reg2UpRead = Reg2Up + Reg2Read
FuncInfoOlap = sp.zeros([2,thetaCnt,phiCnt],complex)
I00 = cumtrapz( (Reg2Down[ti:tf].conj() * Reg2Down[ti:tf]).real, x=None, dx=dt )[-1]
I0R = 1j*cumtrapz( (Reg2Read[ti:tf].conj() * Reg2Down[ti:tf]).imag, x=None, dx=dt )[-1]
I0R += cumtrapz( (Reg2Read[ti:tf].conj() * Reg2Down[ti:tf]).real, x=None, dx=dt )[-1]
I11 = cumtrapz( (Reg2Up [ti:tf].conj() * Reg2Up [ti:tf]).real, x=None, dx=dt )[-1]
I1R = 1j*cumtrapz( (Reg2Read[ti:tf].conj() * Reg2Up [ti:tf]).imag, x=None, dx=dt )[-1]
I1R += cumtrapz( (Reg2Read[ti:tf].conj() * Reg2Up [ti:tf]).real, x=None, dx=dt )[-1]
fs = 20
for i in sp.arange(0.0,thetaCnt):
theta = i/(thetaCnt-1.0) # from 0 to 1 * pi
for j in sp.arange(0.0,phiCnt):
phi = j/(phiCnt-1.0)*2.0 # from 0 to 2 * pi
FuncCavity = sp.cos(theta*sp.pi)*Reg2Down[ti:tf] + sp.sin(theta*sp.pi)*sp.exp(-1j*phi*sp.pi)*Reg2Up[ti:tf]
FuncCavity[:] += Reg2Read [ti:tf]
# plt.title("state $\\theat={0:}$, $\\phi={1:}$".format(theta,phi),fontsize=fs)
# plt.plot(time['read'][ti:tf],sp.absolute(FuncCavity)**2,color="green",linewidth=2)
# plt.plot(time['read'][ti:tf],sp.absolute(Reg2DownRead[ti:tf])**2,color="blue",linewidth=2)
# plt.plot(time['read'][ti:tf],sp.absolute(Reg2UpRead[ti:tf])**2,color="red",linewidth=2)
# plt.ylabel("$A(t)$",fontsize=fs)
# plt.xlim([time['read'][ti],time['read'][tf]])
# plt.show()
FuncInfoOlap [0,i,j] = cumtrapz( (FuncCavity[:].conj() * Reg2Down[ti:tf]).real, x=None, dx=dt )[-1]
FuncInfoOlap [0,i,j] += 1j*cumtrapz( (FuncCavity[:].conj() * Reg2Down[ti:tf]).imag, x=None, dx=dt )[-1]
FuncInfoOlap [0,i,j] = (FuncInfoOlap [0,i,j]-I0R)/I00
FuncInfoOlap [1,i,j] = cumtrapz( (FuncCavity[:].conj() * Reg2Up[ti:tf]).real, x=None, dx=dt )[-1]
FuncInfoOlap [1,i,j] += 1j*cumtrapz( (FuncCavity[:].conj() * Reg2Up[ti:tf]).imag, x=None, dx=dt )[-1]
FuncInfoOlap [1,i,j] = (FuncInfoOlap [1,i,j]-I1R)/I11
xx, yy = sp.meshgrid(sp.linspace(0.0,2.0,phiCnt),sp.linspace(0.0,1.0,thetaCnt))
zmin = 0.0
zmax = +1.0
zzOlapR0 = FuncInfoOlap [0,:,:].real
zzOlapI0 = FuncInfoOlap [0,:,:].imag
print zzOlapI0
zzOlapR1 = FuncInfoOlap [1,:,:].real
zzOlapI1 = FuncInfoOlap [1,:,:].imag
fig = plt.figure()
fig1 = fig.add_subplot(221, projection='3d')
fig1.plot_surface(xx, yy, zzOlapR0, rstride=5, cstride=5, cmap=myMap, alpha=0.5,zorder=11.0,vmin=zzOlapR0.min(), vmax=zzOlapR0.max())
fig1.set_zlim(-1,1)
fig1.set_title("a) Re$[(\\tilde O($\"$0$\"$)-\\tilde {\cal I}_{0R})/\\tilde {\cal I}_{00}]\\approx\cos(\\theta)$",fontsize=fs)
fig1.set_ylabel("$\\theta/\pi$",fontsize=fs)
fig1.set_xlabel("$\phi / \pi$",fontsize=fs)
fig1 = fig.add_subplot(223, projection='3d')
fig1.plot_surface(xx, yy, zzOlapI0, rstride=5, cstride=5, cmap=myMap, alpha=0.5,zorder=11.0,vmin=zzOlapI0.min(), vmax=zzOlapI0.max())
fig1.set_zlim(-0.01,0.01)
fig1.set_title("c) Im$[(\\tilde O($\"$0$\"$)-\\tilde {\cal I}_{0R})/\\tilde {\cal I}_{00}]\\approx0$",fontsize=fs)
fig1.set_ylabel("$\\theta/\pi$",fontsize=fs)
fig1.set_xlabel("$\phi/\pi$",fontsize=fs)
fig1 = fig.add_subplot(222, projection='3d')
fig1.plot_surface(xx, yy, zzOlapR1, rstride=5, cstride=5, cmap=myMap, alpha=0.5,zorder=11.0,vmin=zzOlapR1.min(), vmax=zzOlapR1.max())
fig1.set_zlim(-1,1)
fig1.set_title("b) Re$[(\\tilde O($\"$1$\"$)-\\tilde {\cal I}_{1R})/\\tilde {\cal I}_{11}]\\approx\sin(\\theta)\cdot\cos(\phi)$",fontsize=fs)
fig1.set_ylabel("$\\theta/\pi$",fontsize=fs)
fig1.set_xlabel("$\phi / \pi$",fontsize=fs)
fig1 = fig.add_subplot(224, projection='3d')
fig1.plot_surface(xx, yy, zzOlapI1, rstride=5, cstride=5, cmap=myMap, alpha=0.5,zorder=11.0,vmin=zzOlapI1.min(), vmax=zzOlapI1.max())
fig1.set_zlim(-1,1)
# fig1.set_title("a) Re$[(O_{\mathbb{C}}("0")-\\tilde {\¢al I}_{0R})/\\tilde {\¢al I}_{00}]$",fontsize=fs)
fig1.set_title("d) Im$[(\\tilde O($\"$1$\"$)-\\tilde {\cal I}_{1R})/\\tilde {\cal I}_{11}]\\approx\sin(\\theta)\cdot\sin(\phi)$",fontsize=fs)
fig1.set_ylabel("$\\theta/\pi$",fontsize=fs)
fig1.set_xlabel("$\phi/\pi$",fontsize=fs)
plt.show()
def main_routine (wd="./",cfg="./python/parameter.cfg",start=-1,cut1=1000.0,cut2=1000.0,cut3=1000.0,stop=-1,test=0,plotType=0,impose=0,par1=0.0,par2=0.0):
### read config file ###
print ("load from config file: " + cfg)
configParser = cp.ConfigParser()
configParser.read(cfg)
print (configParser.sections())
cfg=configParser.__dict__['_sections'].copy()
#for src, target in cfg['NVSETUP'].items():
# print(src + " : " + target)
omega_c = float(cfg['NVSETUP']['{omega_c}'])
nWrite=int(cfg['OCFourier']['{write_harmonic}'])
nRead =int(cfg['OCFourier']['{read_harmonic}'])
nStore=int(cfg['MEFourier']['{storage_harmonic}'])
nDown =nRead+nWrite
nUp =nDown+nWrite
### read config file ###
### read data ###
cavityWrite,cavityMemo,cavityRead =IOHelper.harmonics_readwrite(**cfg)
time =IOHelper.functionaltimes_readwrite(**cfg)
time['write'][:] *= 1e9
time['read'][:] *= 1e9
ti = int(time['idx_ti'])
tf = int(time['idx_tf'])
functime = time['read'][ti:tf]
filename =IOHelper.getVectorOverlap(**cfg)
reGamma,imGamma=sp.loadtxt(filename).T
alphaR =reGamma[0:nRead] -1j*imGamma[0:nRead]
alphaD =reGamma[nRead:nDown]-1j*imGamma[nRead:nDown]
alphaU =reGamma[nDown:nUp] -1j*imGamma[nDown:nUp]
### read data ###
### plotting
Reg1Down = sp.dot(alphaD.conj(),cavityWrite)
Reg2Down = sp.dot(alphaD.conj(),cavityMemo)
Reg2DownRead = Reg2Down + sp.dot(alphaR.conj(),cavityRead)
Reg1Up = sp.dot(alphaU.conj(),cavityWrite)
Reg2Up = sp.dot(alphaU.conj(),cavityMemo)
Reg2UpRead = Reg2Up + sp.dot(alphaR.conj(),cavityRead)
Reg1Super = superimpose(Reg1Down,Reg1Up,par1,par2)
Reg2Super = superimpose(Reg2Down,Reg2Up,par1,par2)
Reg2SuperRead = Reg2Super + sp.dot(alphaR.conj(),cavityRead)
Reg2Read = sp.dot(alphaR.conj(),cavityRead)
minT = min(functime) # min(time['read'])
maxT = max(functime) # min(time['read'])
minYComplete = -0.6
maxYComplete = 0.6
minYInfo = -0.6
maxYInfo = 0.4
minYRead = -0.4
maxYRead = 0.6
fs = 25
plt.subplot(5,3,1)
plt.title("state '0'",fontsize=fs)
plt.plot(time['read'],Reg2DownRead.real,color="blue",linewidth=2)
plt.plot(time['read'],Reg2DownRead.imag,color="lightblue",linewidth=2)
plt.ylabel("$A(t)$",fontsize=fs)
plt.ylim([minYComplete,maxYComplete])
plt.xlim([minT,maxT])
plt.subplot(5,3,2)
plt.title("state '1'",fontsize=fs)
plt.plot(time['read'],Reg2UpRead.real,color="red",linewidth=2)
plt.plot(time['read'],Reg2UpRead.imag,color="orange",linewidth=2)
plt.ylim([minYComplete,maxYComplete])
plt.xlim([minT,maxT])
plt.subplot(5,3,3)
plt.title("phaseshift $\phi_0=${:}$\pi$".format(par1),fontsize=fs)
plt.plot(time['read'],Reg2SuperRead.real,color="green",linewidth=2)
plt.plot(time['read'],Reg2SuperRead.imag,color="lightgreen",linewidth=2)
plt.ylim([minYComplete,maxYComplete])
plt.xlim([minT,maxT])
plt.subplot(5,3,4)
plt.plot(time['read'],sp.absolute(Reg2DownRead)**2,color="blue",linewidth=2)
plt.ylabel("$|A(t)|^2$",fontsize=fs)
plt.ylim([0,(max(sp.absolute(minYComplete),sp.absolute(maxYComplete)))])
plt.xlim([minT,maxT])
plt.subplot(5,3,5)
plt.plot(time['read'],sp.absolute(Reg2UpRead)**2,color="red",linewidth=2)
plt.ylim([0,(max(sp.absolute(minYComplete),sp.absolute(maxYComplete)))])
plt.xlim([minT,maxT])
plt.subplot(5,3,6)
plt.plot(time['read'],sp.absolute(Reg2SuperRead)**2,color="green",linewidth=2)
plt.ylim([0,(max(sp.absolute(minYComplete),sp.absolute(maxYComplete)))])
plt.xlim([minT,maxT])
plt.subplot(5,3,7)
plt.plot(time['read'],Reg2Down.real,color="blue",linewidth=2)
plt.plot(time['read'],Reg2Down.imag,color="lightblue",linewidth=2)
plt.ylabel("$\\tilde{A}(t)$",fontsize=fs)
plt.ylim([minYInfo,maxYInfo])
plt.xlim([minT,maxT])
plt.subplot(5,3,8)
plt.plot(time['read'],Reg2Up.real,color="red",linewidth=2)
plt.plot(time['read'],Reg2Up.imag,color="orange",linewidth=2)
plt.ylim([minYInfo,maxYInfo])
plt.xlim([minT,maxT])
plt.subplot(5,3,9)
plt.plot(time['read'],Reg2Super.real,color="green",linewidth=2)
plt.plot(time['read'],Reg2Super.imag,color="lightgreen",linewidth=2)
plt.ylim([minYInfo,maxYInfo])
plt.xlim([minT,maxT])
plt.subplot(5,3,10)
plt.plot(time['read'],sp.absolute(Reg2Down)**2,color="blue",linewidth=2)
plt.ylabel("$|\\tilde{A}(t)|^2$",fontsize=fs)
plt.ylim([0,(max(sp.absolute(minYInfo),sp.absolute(maxYInfo)))])
plt.xlim([minT,maxT])
plt.subplot(5,3,11)
plt.plot(time['read'],sp.absolute(Reg2Up)**2,color="red",linewidth=2)
plt.ylim([0,(max(sp.absolute(minYInfo),sp.absolute(maxYInfo)))])
plt.xlim([minT,maxT])
plt.subplot(5,3,12)
plt.plot(time['read'],sp.absolute(Reg2Super)**2,color="green",linewidth=2)
plt.ylim([0,(max(sp.absolute(minYInfo),sp.absolute(maxYInfo)))])
plt.xlim([minT,maxT])
plt.subplot(5,3,13)
plt.plot(time['read'],Reg2Read.real,linewidth=2,color="black")
plt.plot(time['read'],Reg2Read.imag,linewidth=2,color="darkgray")
plt.ylim([minYRead,maxYRead])
plt.xlim([minT,maxT])
plt.ylabel("$\\tilde{A}_R(t)$",fontsize=fs)
plt.xlabel("$t$ in ns",fontsize=fs)
plt.subplot(5,3,14)
plt.plot(time['read'],Reg2Read.real,linewidth=2,color="black")
plt.plot(time['read'],Reg2Read.imag,linewidth=2,color="darkgray")
plt.ylim([minYRead,maxYRead])
plt.xlim([minT,maxT])
plt.xlabel("$t$ in ns",fontsize=fs)
plt.subplot(5,3,15)
plt.plot(time['read'],Reg2Read.real,linewidth=2,color="black")
plt.plot(time['read'],Reg2Read.imag,linewidth=2,color="darkgray")
plt.ylim([minYRead,maxYRead])
plt.xlim([minT,maxT])
plt.xlabel("$t$ in ns",fontsize=fs)
# plt.subplot(4,3,5)
# plt.plot(functime,ReadUpReg2[ti:tf].imag,color="darkgray",linewidth=2)
# plt.plot(functime,cavityUpReg3[ti:tf].imag,color="red",linewidth=2)
# plt.xlim([min(functime),max(functime)])
# plt.subplot(4,3,3)
# if (impose != 1):
# plt.title("$\\alpha_{S}$")
# plt.bar(sp.arange(1,nStore+1,1),alphaS.real,color="green")
# else :
# plt.title("superposition, $A(t)$")
# plt.plot(functime,ReadSuperReg2[ti:tf].real,color="darkgray",linewidth=2)
# plt.plot(functime,cavitySuperReg3[ti:tf].real,color="green",linewidth=2)
# plt.xlim([min(functime),max(functime)])
# plt.subplot(4,3,6)
# if (impose != 1):
# plt.bar(sp.arange(1,nStore+1,1),alphaS.imag,color="green")
# else :
# plt.plot(functime,ReadSuperReg2[ti:tf].imag,color="darkgray",linewidth=2)
# plt.plot(functime,cavitySuperReg3[ti:tf].imag,color="green",linewidth=2)
# plt.xlim([min(functime),max(functime)])
# plt.subplot2grid((4,3),(2,0),colspan=3,rowspan=2)
# cavityCheckReg1,cavityCheckReg2,cavityCheckReg3 = pltFunction(cavityCheckReg1,cavityCheckReg2,cavityCheckReg3,plotType)
# cavitySuperReg1,cavitySuperReg2,cavitySuperReg3 = pltFunction(cavitySuperReg1,cavitySuperReg2,cavitySuperReg3,plotType)
# cavityDownReg1, cavityDownReg2, cavityDownReg3 = pltFunction(cavityDownReg1, cavityDownReg2, cavityDownReg3, plotType)
# cavityUpReg1, cavityUpReg2, cavityUpReg3 = pltFunction(cavityUpReg1, cavityUpReg2, cavityUpReg3, plotType)
# if (test==1):
# print ("### compile fortran routines")
# cmd = "./scripts/ifort-memoryHarmonics.sh " + wd
# call(cmd.split())
# print ("### call memoryOptimized")
# cmd=wd+"memoryOptimized"
# call(cmd.split())
# print ("### call memorySuperimposed")
# cmd=wd+"memorySuperimposed"
# generateSuperposition = Popen(cmd.split(), stdin=PIPE) # run fortran program with piped standard input
# cmd = "echo {:}".format(par1) # communication with fortran-routine: chose superposition parameter
# generateInput = Popen(cmd.split(), stdout=generateSuperposition.stdin) # send action to fortran program
# output = generateSuperposition.communicate()[0]
# generateInput.wait()
# filename = cfg['FILES']['{prefix}']+cfg['FILES']['{name_readwrite}']+\
# cfg['FILES']['{name_storage}']+cfg['FILES']['{name_optimized}']
# mytimeU,__,A_Re_U,A_Im_U = sp.loadtxt(filename+"cavity_up_stored" +cfg['FILES']['{postfix}']).T
# mytimeD,__,A_Re_D,A_Im_D = sp.loadtxt(filename+"cavity_down_stored" +cfg['FILES']['{postfix}']).T
# mytimeS,__,A_Re_S,A_Im_S = sp.loadtxt(filename+"cavity_super_stored"+cfg['FILES']['{postfix}']).T
# cavityMode_U,cavityMode_D,cavityMode_S = pltFunction(A_Re_U+1j*A_Im_U, A_Re_D+1j*A_Im_D, A_Re_S+1j*A_Im_S,plotType)
# cavityMaxDown = max(max(cavityDownReg1),max(cavityDownReg2),max(cavityDownReg3))
# cavityMaxUp = max(max(cavityUpReg1),max(cavityUpReg2),max(cavityUpReg3))
# cavityMaxSuper= max(max(cavitySuperReg1),max(cavitySuperReg2),max(cavitySuperReg3))
# cavityMax = max(cavityMaxDown,cavityMaxUp,cavityMaxSuper)
# cavityMinDown = min(min(cavityDownReg1),min(cavityDownReg2),min(cavityDownReg3))
# cavityMinUp = min(min(cavityUpReg1),min(cavityUpReg2),min(cavityUpReg3))
# cavityMinSuper= max(min(cavitySuperReg1),min(cavitySuperReg2),min(cavitySuperReg3))
# cavityMin = min(cavityMinDown,cavityMinUp,cavityMinSuper)
# plt.plot(time['write'],cavityDownReg1,color="blue",linewidth=2)
# plt.plot(time['store'],cavityDownReg2,color="blue",linewidth=2)
# plt.plot(time['read'] ,cavityDownReg3,color="blue",linewidth=2,label="state '0'")
# plt.plot(time['write'],cavityUpReg1,color="red",linewidth=2)
# plt.plot(time['store'],cavityUpReg2,color="red",linewidth=2)
# plt.plot(time['read'] ,cavityUpReg3,color="red",linewidth=2,label="state '1'")
# if (impose == 1):
# plt.plot(time['write'],cavitySuperReg1,color="green",linewidth=2)
# plt.plot(time['store'],cavitySuperReg2,color="green",linewidth=2)
# plt.plot(time['read'] ,cavitySuperReg3,color="green",linewidth=2,label="super state")
# if (test == 1):
# plt.plot(mytimeD,cavityMode_D,label="state '0' test",color="cyan")
# plt.plot(mytimeU,cavityMode_U,label="state '1' test",color="magenta")
# if (impose == 1):
# plt.plot(time['write'],cavityCheckReg1,color="orange")
# plt.plot(time['store'],cavityCheckReg2,color="orange")
# plt.plot(time['read'] ,cavityCheckReg3,color="orange",label="super state")
# plt.plot(mytimeS,cavityMode_S,label="super state test",color="brown")
## plt.legend()
# plt.xlabel('time in ns')
# plt.ylabel('$|A(t)|^2$')
#
# if start != -1 and stop != -1:
# plt.xlim([start,stop])
# else:
# plt.xlim([min(time['write']),max(time['read'])])
# plt.ylim([cavityMin*1.1,cavityMax*1.1])
# plt.fill_between(functime, cavityMax*1.1, cavityMin*1.1, color='lightgray', facecolor='lightgray', alpha=0.5)
# plt.plot([time['store'][0],time['store'][0]], [cavityMin*1.1,cavityMax*1.1], 'k--')
# plt.plot([time['read'] [0],time['read'] [0]], [cavityMin*1.1,cavityMax*1.1], 'k--')
# plt.plot([cut1,cut1],[0,cavityMax*1.1],linewidth=2.0)
# plt.plot([cut2,cut2],[0,cavityMax*1.1],linewidth=2.0)
# plt.plot([cut3,cut3],[0,cavityMax*1.1],linewidth=2.0)
plt.show()
