def fft2(self, data, dir=0, zp=1, out_shape=[], tx_ON=True):
# data: np.complex64
# dir: int (0 or 1)
# zp: float (>1)
# simplify the fftw wrapper
import numpy as np
import core.math.fft as corefft
# generate output dim size array
# fortran dimension ordering
outdims = list(data.shape)
if len(out_shape):
outdims = out_shape
else:
for i in range(len(outdims)):
outdims[i] = int(outdims[i] * zp)
outdims.reverse()
outdims = np.array(outdims, dtype=np.int64)
# load fft arguments
kwargs = {}
kwargs['dir'] = dir
# transform or just zeropad
if tx_ON:
kwargs['dim1'] = 1
kwargs['dim2'] = 1
else:
kwargs['dim1'] = 0
kwargs['dim2'] = 0
return corefft.fftw(data, outdims, **kwargs)
def fft2D(data, dir=0, out_dims_fft=[]):
# data: np.complex64
# dir: int (0 or 1)
# outdims = [nr_coils, extra_dim2, extra_dim1, mtx, mtx]
import core.math.fft as corefft
# generate output dim size array
# fortran dimension ordering
if len(out_dims_fft):
outdims = out_dims_fft.copy()
else:
outdims = list(data.shape)
outdims.reverse()
outdims = np.array(outdims, dtype=np.int64)
# load fft arguments
kwargs = {}
kwargs['dir'] = dir
# transform
kwargs['dim1'] = 1
kwargs['dim2'] = 1
kwargs['dim3'] = 0
kwargs['dim4'] = 0
kwargs['dim5'] = 0
return corefft.fftw(data, outdims, **kwargs)
def fft2(self, data, dir=0, zp=1, out_shape=[], tx_ON=True):
# data: np.complex64
# dir: int (0 or 1)
# zp: float (>1)
# simplify the fftw wrapper
import numpy as np
import core.math.fft as corefft
# generate output dim size array
# fortran dimension ordering
outdims = list(data.shape)
if len(out_shape):
outdims = out_shape
else:
for i in range(len(outdims)):
outdims[i] = int(outdims[i]*zp)
outdims.reverse()
outdims = np.array(outdims, dtype=np.int64)
# load fft arguments
kwargs = {}
kwargs['dir'] = dir
# transform or just zeropad
if tx_ON:
kwargs['dim1'] = 1
kwargs['dim2'] = 1
else:
kwargs['dim1'] = 0
kwargs['dim2'] = 0
return corefft.fftw(data, outdims, **kwargs)
def compute(self):
import numpy as np
data = self.getData('in')
if data.dtype != 'complex128':
data = data.astype('complex64')
if self.getVal('compute'):
# build the fft.fft argument list
kwargs = {}
# Direction | 0:FWD, 1:BKWD
if self.getVal('inverse'):
kwargs['dir'] = 1
else:
kwargs['dir'] = 0
out_dims = np.array([], np.int64)
# load up the dimension args
for i in range(self.ndim):
kwargs['dim'+str(i+1)] = 0
val = self.getVal(self.dim_base_name+str(-i-1)+']')
if i < len(data.shape):
out_dims = np.append(out_dims, val['length'])
if val['compute']:
kwargs['dim'+str(i+1)] = 1
# import in thread to save namespace
import core.math.fft as ft
out = ft.fftw(data.astype(np.complex64), out_dims, **kwargs)
if data.dtype == np.complex128:
out = out.astype(np.complex128)
self.setData('out', out)
return(0)
def compute(self):
import numpy as np
data = self.getData('in')
data = np.require(data, dtype=np.complex64, requirements='C')
if self.getVal('compute'):
# build the fft.fft argument list
kwargs = {}
# Direction | 0:FWD, 1:BKWD
if self.getVal('inverse'):
kwargs['dir'] = 1
else:
kwargs['dir'] = 0
out_dims = np.array([], np.int64)
# load up the dimension args
for i in range(self.ndim):
kwargs['dim' + str(i + 1)] = 0
val = self.getVal(self.dim_base_name + str(-i - 1) + ']')
if i < len(data.shape):
out_dims = np.append(out_dims, val['length'])
if val['compute']:
kwargs['dim' + str(i + 1)] = 1
# import in thread to save namespace
import core.math.fft as ft
out = ft.fftw(data, out_dims, **kwargs)
self.setData('out', out)
return (0)
def compute(self):
data_in = self.getData('in')
kind = self.getVal('interpolation-mode')
self.dimm = data_in.shape
self.ndim = data_in.ndim
data_out = data_in.copy()
if self.getVal('compute'):
if kind in ('linear', 'nearest'):
for i in range(self.ndim):
val = self.getVal(self.dim_base_name + str(i) + ']')
interpnew = val['length']
axisnew = self.dimm[i]
x = np.linspace(0, axisnew - 1, axisnew)
xnew = np.linspace(0, axisnew - 1, interpnew)
if axisnew == 1:
reps = np.ones((self.ndim, ))
reps[i] = interpnew
ynew = np.tile(data_out, reps)
elif axisnew == interpnew:
continue
else:
yinterp = interpolate.interp1d(x,
data_out,
kind=kind,
axis=i)
ynew = yinterp(xnew)
data_out = ynew
elif kind in ('zero', 'slinear', 'quadratic', 'cubic'):
from scipy.ndimage.interpolation import map_coordinates
orders = {'zero': 0, 'slinear': 1, 'quadratic': 2, 'cubic': 3}
o = orders[kind]
# if the data is complex, interp real and imaginary separately
if data_in.dtype in (np.complex64, np.complex128):
data_real = np.real(data_in)
data_imag = np.imag(data_in)
else:
data_real = data_in
data_imag = None
new_dims = []
for i in range(self.ndim):
val = self.getVal(self.dim_base_name + str(i) + ']')
new_dims.append(
np.linspace(0, val['in_len'] - 1, val['length']))
coords = np.meshgrid(*new_dims, indexing='ij')
data_out = map_coordinates(data_real, coords, order=o)
if data_imag is not None:
data_out = (
data_out +
1j * map_coordinates(data_imag, coords, order=o))
else:
# use zero-padding and FFTW to sinc-interpolate
import core.math.fft as ft
data_in_c64 = np.require(data_in,
dtype=np.complex64,
requirements='C')
old_dims = np.asarray(self.dimm[::-1], dtype=np.int64)
new_dims = old_dims.copy()
fftargs = {}
win = np.ones(data_in.shape)
scale = 1
for i in range(self.ndim):
val = self.getVal(self.dim_base_name + str(i) + ']')
new_dims[self.ndim - i - 1] = np.int64(val['length'])
if val['length'] == val['in_len']:
fftargs['dim{}'.format(self.ndim - i)] = 0
else:
win *= self.window(i)
fftargs['dim{}'.format(self.ndim - i)] = 1
scale *= val['length'] / val['in_len']
# forward FFT with original dimensions
fftargs['dir'] = 0
data_out = ft.fftw(data_in_c64, old_dims, **fftargs)
data_out *= win.astype(np.complex64)
# inverse FFT with new dimensions (zero-pad kspace)
fftargs['dir'] = 1
data_out = ft.fftw(data_out, new_dims, **fftargs)
if data_in.dtype in (np.float32, np.float64):
data_out = np.real(data_out)
# data needs to be scaled since we changed the size between the
# forward and inverse FT
data_out *= scale
self.setData('out', data_out)
else:
pass
return (0)