[Numpy-discussion] Detecting phase windings
Gary Ruben
gruben@bigpond.net...
Wed Jul 9 06:13:59 CDT 2008
I had a chance to look at Anne's suggestion from this thread
<http://www.mail-archive.com/numpy-discussion@scipy.org/msg10091.html>
and I thought I should post my phase winding finder solution, which is
slightly modified from her idea. Thanks Anne. This is a vast improvement
over my original slow code, and is useful to me now, but I will probably
have to rewrite it in C, weave or Cython when I start generating large
data sets.
import numpy as np
from pyvtk import *
def find_vortices(x, axis=0):
xx = np.rollaxis(x, axis)
r = np.empty_like(xx).astype(np.bool)
for i in range(xx.shape[0]):
print i,
xxx = xx[i,...]
loop = np.concatenate(([xxx],
[np.roll(xxx,1,0)],
[np.roll(np.roll(xxx,1,0),1,1)],
[np.roll(xxx,1,1)],
[xxx]), axis=0)
loop = np.unwrap(loop, axis=0)
r[i,...] = np.abs(loop[0,...]-loop[-1,...])>pi/2
return np.rollaxis(r, 0, axis+1)[1:-1,1:-1,1:-1]
and call it like so on the 3D phaseField array, which is a float32 array
containing the phase angle at each point:
# Detect the nodal lines
b0 = find_vortices(phaseField, axis=0)
b0 |= find_vortices(phaseField, axis=1)
b0 |= find_vortices(phaseField, axis=2)
# output vortices to vtk
indices = np.transpose(np.nonzero(b0)).tolist()
vtk = VtkData(UnstructuredGrid(indices))
vtk.tofile('%s_vol'%sys.argv[0][:-3],'binary')
del vtk
--
Gary R.
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