DAMASK_EICMD/processing/post/averageDown.py

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#!/usr/bin/env python3
import os
import sys
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from io import StringIO
from optparse import OptionParser
import numpy as np
import scipy.ndimage
import damask
scriptName = os.path.splitext(os.path.basename(__file__))[0]
scriptID = ' '.join([scriptName,damask.version])
# --------------------------------------------------------------------
# MAIN
# --------------------------------------------------------------------
parser = OptionParser(option_class=damask.extendableOption, usage='%prog options [ASCIItable(s)]', description = """
Average each data block of size 'packing' into single values thus reducing the former grid to grid/packing.
""", version = scriptID)
parser.add_option('-c','--coordinates',
dest = 'pos',
type = 'string', metavar = 'string',
help = 'column label of coordinates [%default]')
parser.add_option('-p','--packing',
dest = 'packing',
type = 'int', nargs = 3, metavar = 'int int int',
help = 'size of packed group [%default]')
parser.add_option('--shift',
dest = 'shift',
type = 'int', nargs = 3, metavar = 'int int int',
help = 'shift vector of packing stencil [%default]')
parser.add_option('-g', '--grid',
dest = 'grid',
type = 'int', nargs = 3, metavar = 'int int int',
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help = 'grid in x,y,z (optional)')
parser.add_option('-s', '--size',
dest = 'size',
type = 'float', nargs = 3, metavar = 'float float float',
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help = 'size in x,y,z (optional)')
parser.set_defaults(pos = 'pos',
packing = (2,2,2),
shift = (0,0,0),
)
(options,filenames) = parser.parse_args()
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if filenames == []: filenames = [None]
packing = np.array(options.packing,dtype = int)
shift = np.array(options.shift, dtype = int)
prefix = 'averagedDown{}x{}x{}_'.format(*packing)
if any(shift != 0): prefix += 'shift{:+}{:+}{:+}_'.format(*shift)
for name in filenames:
damask.util.report(scriptName,name)
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table = damask.Table.from_ASCII(StringIO(''.join(sys.stdin.read())) if name is None else name)
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if (options.grid is None or options.size is None):
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grid,size,origin = damask.grid_filters.cell_coord0_gridSizeOrigin(table.get(options.pos))
else:
grid = np.array(options.grid,'i')
size = np.array(options.size,'d')
packing = np.where(grid == 1,1,packing) # reset packing to 1 where grid==1
shift = np.where(grid == 1,0,shift) # reset shift to 0 where grid==1
packedGrid = np.maximum(np.ones(3,'i'),grid//packing)
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data = table.data.values.reshape(tuple(grid)+(-1,),order = 'F')
averagedDown = scipy.ndimage.filters.uniform_filter( \
np.roll(
np.roll(
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np.roll(data,
-shift[0],axis = 0),
-shift[1],axis = 1),
-shift[2],axis = 2),
size = list(packing) + [1],
mode = 'wrap',
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origin = list(-(packing//2)) + [0])\
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[::packing[0],::packing[1],::packing[2],:].reshape((packedGrid.prod(),-1),order = 'F')
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table = damask.Table(averagedDown,table.shapes,table.comments)
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coords = damask.grid_filters.cell_coord0(packedGrid,size,shift/packedGrid*size+origin)
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table.set(options.pos, coords.reshape((-1,3)))
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outname = os.path.join(os.path.dirname(name),prefix+os.path.basename(name))
table.to_ASCII(sys.stdout if name is None else outname)