DAMASK_EICMD/processing/post/vtk_voxelcloud.py

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#!/usr/bin/env python
# -*- coding: UTF-8 no BOM -*-
import os,sys,vtk
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import numpy as np
from optparse import OptionParser
import damask
scriptName = os.path.splitext(os.path.basename(__file__))[0]
scriptID = ' '.join([scriptName,damask.version])
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# --------------------------------------------------------------------
# MAIN
# --------------------------------------------------------------------
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parser = OptionParser(option_class=damask.extendableOption, usage='%prog options [file[s]]', description = """
Create hexahedral voxels around points in an ASCIItable.
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""", version = scriptID)
parser.add_option('-d', '--deformed',
dest = 'deformed',
type = 'string', metavar = 'string',
help = 'deformed coordinate label [%default]')
parser.add_option('-c','--coordinates',
dest = 'coords',
type = 'string', metavar='string',
help = 'undeformed coordinates label [%default]')
parser.set_defaults(deformed = 'ipdeformedcoord',
coords = 'ipinitialcoord',
)
(options, filenames) = parser.parse_args()
# --- loop over input files -------------------------------------------------------------------------
if filenames == []: filenames = [None]
for name in filenames:
try:
table = damask.ASCIItable(name = name,
buffered = False, readonly = True)
except: continue
damask.util.report(scriptName,name)
# --------------- interprete header -----------------------------------------------------------------
table.head_read()
errors=[]
if table.label_dimension(options.deformed) != 3:
errors.append('columns "{}" have dimension {}'.format(options.deformed,table.label_dimension(options.deformed)))
if table.label_dimension(options.coords) != 3:
errors.append('coordinates {} are not a vector.'.format(options.coords))
table.data_readArray([options.coords,options.deformed])
# --------------- figure out size and grid ---------------------------------------------------------
coords = [{},{},{}]
for i in xrange(len(table.data)):
for j in xrange(3):
coords[j][str(table.data[i,table.label_index(options.coords)+j])] = True
grid = np.array(map(len,coords),'i')
size = grid/np.maximum(np.ones(3,'d'),grid-1.0)* \
np.array([max(map(float,coords[0].keys()))-min(map(float,coords[0].keys())),\
max(map(float,coords[1].keys()))-min(map(float,coords[1].keys())),\
max(map(float,coords[2].keys()))-min(map(float,coords[2].keys())),\
],'d') # size from bounding box, corrected for cell-centeredness
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size = np.where(grid > 1, size, min(size[grid > 1]/grid[grid > 1])) # spacing for grid==1 set to smallest among other spacings
# ------------------------------------------ process data ---------------------------------------
hexPoints = np.array([[-1,-1,-1],
[ 1,-1,-1],
[ 1, 1,-1],
[-1, 1,-1],
[-1,-1, 1],
[ 1,-1, 1],
[ 1, 1, 1],
[-1, 1, 1],
])
halfDelta = 0.5*size/grid
Points = vtk.vtkPoints()
Hex = vtk.vtkHexahedron()
uGrid = vtk.vtkUnstructuredGrid()
for p in table.data:
for i,h in enumerate(hexPoints):
pointID = Points.InsertNextPoint(p[table.label_index(options.deformed):table.label_index(options.deformed)+3]+h*halfDelta)
Hex.GetPointIds().SetId(i,pointID)
uGrid.InsertNextCell(Hex.GetCellType(), Hex.GetPointIds())
uGrid.SetPoints(Points)
# ------------------------------------------ output result ---------------------------------------
if name:
writer = vtk.vtkXMLUnstructuredGridWriter()
(directory,filename) = os.path.split(name)
writer.SetDataModeToBinary()
writer.SetCompressorTypeToZLib()
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writer.SetFileName(os.path.join(directory,os.path.splitext(filename)[0]\
+'.'+writer.GetDefaultFileExtension()))
else:
writer = vtk.vtkDataSetWriter()
writer.WriteToOutputStringOn()
writer.SetHeader('# powered by '+scriptID)
if vtk.VTK_MAJOR_VERSION <= 5: writer.SetInput(uGrid)
else: writer.SetInputData(uGrid)
writer.Write()
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if name is None: sys.stdout.write(writer.GetOutputString()[0:writer.GetOutputStringLength()])
table.close() # close input ASCII table