Commit 0c5ab9e9 authored by Martin Reinecke's avatar Martin Reinecke
Browse files

new demo

parent a12138dd
......@@ -137,6 +137,9 @@ if __name__ == '__main__':
d_space =[0]
lamb = lambda inp: R(sky(inp))
mock_position = ift.from_random('normal', domain)
#ift.extra.check_value_gradient_consistency2(lamb, mock_position)
#testl = GaussianEnergy2(None, M)
#ift.extra.check_value_gradient_metric_consistency2(testl, sky(mock_position))
data = lamb(mock_position)
data = np.random.poisson(data.to_global_data().astype(np.float64))
data = ift.Field.from_global_data(d_space, data)
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# GNU General Public License for more details.
# You should have received a copy of the GNU General Public License
# along with this program. If not, see <>.
# Copyright(C) 2013-2018 Max-Planck-Society
# NIFTy is being developed at the Max-Planck-Institut fuer Astrophysik
# and financially supported by the Studienstiftung des deutschen Volkes.
import nifty5 as ift
import numpy as np
def get_random_LOS(n_los):
starts = list(np.random.uniform(0, 1, (n_los, 2)).T)
ends = list(np.random.uniform(0, 1, (n_los, 2)).T)
return starts, ends
class GaussianEnergy2(ift.Operator):
def __init__(self, mean=None, covariance=None):
super(GaussianEnergy2, self).__init__()
self._mean = mean
self._icov = None if covariance is None else covariance.inverse
def __call__(self, x):
residual = x if self._mean is None else x-self._mean
icovres = residual if self._icov is None else self._icov(residual)
res = .5 * (residual*icovres).sum()
metric = ift.SandwichOperator.make(x.jac, self._icov)
return res.add_metric(metric)
class MyHamiltonian(ift.Operator):
def __init__(self, lh, ic_samp=None):
super(MyHamiltonian, self).__init__()
self._lh = lh
self._prior = GaussianEnergy2()
self._ic_samp = ic_samp
def __call__(self, x):
res = self._lh(x) + self._prior(x)
if self._ic_samp is None:
return self._lh(x) + self._prior(x)
lhx = self._lh(x)
prx = self._prior(x)
mtr = ift.SamplingEnabler(lhx.metric, prx.metric.inverse,
self._ic_samp, prx.metric.inverse)
return (lhx+prx).add_metric(mtr)
class EnergyAdapter(ift.Energy):
def __init__(self, position, op):
super(EnergyAdapter, self).__init__(position)
self._op = op
pvar = ift.Linearization.make_var(position)
self._res = op(pvar)
def at(self, position):
return EnergyAdapter(position, self._op)
def value(self):
return self._res.val.local_data[()]
def gradient(self):
return self._res.gradient
def metric(self):
return self._res.metric
class FieldPicker(ift.Operator):
def __init__(self, name_dom):
self._name_dom = name_dom
def __call__(self, x):
if isinstance(x, (ift.Field, ift.MultiField)):
return x[self._name_dom]
dom = x[self._name_dom].domain
return ift.Linearization(x._val[self._name_dom], ift.FieldAdapter(dom, self._name_dom, None))
if __name__ == '__main__':
# FIXME description of the tutorial
position_space = ift.RGSpace([128, 128])
# Setting up an amplitude model
A = ift.AmplitudeModel(position_space, 16, 1, 10, -4., 1, 0., 1.)
dummy = ift.from_random('normal', A.domain)
# Building the model for a correlated signal
harmonic_space = position_space.get_default_codomain()
ht = ift.HarmonicTransformOperator(harmonic_space, position_space)
power_space =[0]
power_distributor = ift.PowerDistributor(harmonic_space, power_space)
position = ift.MultiField.from_dict(
{'xi': ift.Field.from_random('normal', harmonic_space)})
# xi = ift.Variable(position)['xi']
# Amp = power_distributor(A)
# correlated_field_h = Amp * xi
correlated_field = lambda inp: ht(power_distributor(A(inp))*inp["xi"])
# alternatively to the block above one can do:
# correlated_field,_ = ift.make_correlated_field(position_space, A)
# apply some nonlinearity
signal = lambda inp: correlated_field(inp).positive_tanh()
# Building the Line of Sight response
LOS_starts, LOS_ends = get_random_LOS(100)
R = ift.LOSResponse(position_space, starts=LOS_starts,
# build signal response model and model likelihood
signal_response = lambda inp: R(signal(inp))
# specify noise
data_space =
noise = .001
N = ift.ScalingOperator(noise, data_space)
# generate mock data
domain = ift.MultiDomain.union((A.domain, ift.MultiDomain.make({'xi': harmonic_space})))
MOCK_POSITION = ift.from_random('normal', domain)
data = signal_response(MOCK_POSITION) + N.draw_sample()
# set up model likelihood
likelihood = lambda inp: GaussianEnergy2(mean=data, covariance=N)(signal_response(inp))
# set up minimization and inversion schemes
ic_cg = ift.GradientNormController(iteration_limit=10)
ic_sampling = ift.GradientNormController(iteration_limit=100)
ic_newton = ift.GradientNormController(name='Newton', iteration_limit=100)
minimizer = ift.RelaxedNewton(ic_newton)
# build model Hamiltonian
H = MyHamiltonian(likelihood, ic_sampling)
#position = ift.from_random('normal', domain)
#print (position.domain)
H = EnergyAdapter(MOCK_POSITION, H)
INITIAL_POSITION = ift.from_random('normal', H.position.domain)
ift.plot(signal(MOCK_POSITION), title='ground truth')
ift.plot(R.adjoint_times(data), title='data')
ift.plot([A(MOCK_POSITION)], title='power')
ift.plot_finish(nx=3, xsize=16, ysize=5, title="setup", name="setup.png")
# number of samples used to estimate the KL
N_samples = 20
for i in range(2):
H =
samples = [H.metric.draw_sample(from_inverse=True)
for _ in range(N_samples)]
KL = ift.SampledKullbachLeiblerDivergence(H, samples)
KL = KL.make_invertible(ic_cg)
KL, convergence = minimizer(KL)
position = KL.position
ift.plot(signal(position), title="reconstruction")
ift.plot([A(position), A(MOCK_POSITION)],
ift.plot_finish(nx=2, xsize=12, ysize=6, title="loop", name="loop.png")
sc = ift.StatCalculator()
for sample in samples:
ift.plot(sc.mean, title="mean")
ift.plot(ift.sqrt(sc.var), title="std deviation")
powers = [A(s+position) for s in samples]
ift.plot([A(position), A(MOCK_POSITION)]+powers,
ift.plot_finish(nx=3, xsize=16, ysize=5, title="results",
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