script to add scalar data and/or RGB color tuples to rectilinear VTK file (*.vtr)
This commit is contained in:
Philip Eisenlohr
parent
923adbc2d3
commit
5a159dcdfa
|
|
@ -0,0 +1,162 @@
|
||||||
|
#!/usr/bin/env python
|
||||||
|
# -*- coding: UTF-8 no BOM -*-
|
||||||
|
|
||||||
|
import os,sys,string,re,numpy,vtk
|
||||||
|
import damask
|
||||||
|
from collections import defaultdict
|
||||||
|
from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
|
||||||
|
|
||||||
|
scriptID = '$Id: vtk_addVoxelcloudData.py 3064 2014-04-03 01:00:00Z p.eisenlohr $'
|
||||||
|
scriptName = scriptID.split()[1]
|
||||||
|
|
||||||
|
#--------------------------------------------------------------------------------------------------
|
||||||
|
class extendedOption(Option):
|
||||||
|
#--------------------------------------------------------------------------------------------------
|
||||||
|
# used for definition of new option parser action 'extend', which enables to take multiple option arguments
|
||||||
|
# taken from online tutorial http://docs.python.org/library/optparse.html
|
||||||
|
|
||||||
|
ACTIONS = Option.ACTIONS + ("extend",)
|
||||||
|
STORE_ACTIONS = Option.STORE_ACTIONS + ("extend",)
|
||||||
|
TYPED_ACTIONS = Option.TYPED_ACTIONS + ("extend",)
|
||||||
|
ALWAYS_TYPED_ACTIONS = Option.ALWAYS_TYPED_ACTIONS + ("extend",)
|
||||||
|
|
||||||
|
def take_action(self, action, dest, opt, value, values, parser):
|
||||||
|
if action == "extend":
|
||||||
|
lvalue = value.split(",")
|
||||||
|
values.ensure_value(dest, []).extend(lvalue)
|
||||||
|
else:
|
||||||
|
Option.take_action(self, action, dest, opt, value, values, parser)
|
||||||
|
|
||||||
|
|
||||||
|
parser = OptionParser(option_class=extendedOption, usage='%prog options [file[s]]', description = """
|
||||||
|
Add scalar and RGB tuples from ASCIItable to existing VTK voxel grid (.vtr).
|
||||||
|
""" + string.replace(scriptID,'\n','\\n')
|
||||||
|
)
|
||||||
|
|
||||||
|
parser.add_option('-v', '--vtk', dest='vtk', type='string',
|
||||||
|
help = 'VTK file name')
|
||||||
|
parser.add_option('-s', '--scalar', dest='scalar', action='extend',
|
||||||
|
help = 'scalar values')
|
||||||
|
parser.add_option('-c', '--color', dest='color', action='extend',
|
||||||
|
help = 'RGB color tuples')
|
||||||
|
|
||||||
|
parser.set_defaults(scalar = [])
|
||||||
|
parser.set_defaults(color = [])
|
||||||
|
|
||||||
|
(options, filenames) = parser.parse_args()
|
||||||
|
|
||||||
|
datainfo = { # list of requested labels per datatype
|
||||||
|
'scalar': {'len':1,
|
||||||
|
'label':[]},
|
||||||
|
'color': {'len':3,
|
||||||
|
'label':[]},
|
||||||
|
}
|
||||||
|
|
||||||
|
if options.vtk == None or not os.path.exists(options.vtk):
|
||||||
|
parser.error('VTK file does not exist')
|
||||||
|
|
||||||
|
if os.path.splitext(options.vtk)[1] == '.vtr':
|
||||||
|
reader = vtk.vtkXMLRectilinearGridReader()
|
||||||
|
reader.SetFileName(options.vtk)
|
||||||
|
reader.Update()
|
||||||
|
rGrid = reader.GetOutput()
|
||||||
|
elif os.path.splitext(options.vtk)[1] == '.vtk':
|
||||||
|
reader = vtk.vtkGenericDataObjectReader()
|
||||||
|
reader.SetFileName(options.vtk)
|
||||||
|
reader.Update()
|
||||||
|
rGrid = reader.GetRectiliearGridOutput()
|
||||||
|
else:
|
||||||
|
parser.error('unsupported VTK file type extension')
|
||||||
|
|
||||||
|
|
||||||
|
Npoints = rGrid.GetNumberOfPoints()
|
||||||
|
Ncells = rGrid.GetNumberOfCells()
|
||||||
|
|
||||||
|
#if Npoints != Ncells or Npoints != Nvertices:
|
||||||
|
# parser.error('Number of points, cells, and vertices in VTK differ from each other'); sys.exit()
|
||||||
|
if options.scalar != None: datainfo['scalar']['label'] += options.scalar
|
||||||
|
if options.color != None: datainfo['color']['label'] += options.color
|
||||||
|
|
||||||
|
# ------------------------------------------ setup file handles ---------------------------------------
|
||||||
|
|
||||||
|
files = []
|
||||||
|
if filenames == []:
|
||||||
|
files.append({'name':'STDIN', 'input':sys.stdin, 'output':sys.stdout, 'croak':sys.stderr})
|
||||||
|
else:
|
||||||
|
for name in filenames:
|
||||||
|
if os.path.exists(name):
|
||||||
|
files.append({'name':name, 'input':open(name), 'output':sys.stderr, 'croak':sys.stderr})
|
||||||
|
|
||||||
|
#--- loop over input files ------------------------------------------------------------------------
|
||||||
|
for file in files:
|
||||||
|
if file['name'] != 'STDIN': file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
|
||||||
|
else: file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
|
||||||
|
|
||||||
|
table = damask.ASCIItable(file['input'],file['output'],False) # make unbuffered ASCII_table
|
||||||
|
table.head_read() # read ASCII header info
|
||||||
|
|
||||||
|
# --------------- figure out columns to process
|
||||||
|
active = defaultdict(list)
|
||||||
|
column = defaultdict(dict)
|
||||||
|
array = defaultdict(dict)
|
||||||
|
|
||||||
|
for datatype,info in datainfo.items():
|
||||||
|
for label in info['label']:
|
||||||
|
foundIt = False
|
||||||
|
for key in ['1_'+label,label]:
|
||||||
|
if key in table.labels:
|
||||||
|
foundIt = True
|
||||||
|
active[datatype].append(label)
|
||||||
|
column[datatype][label] = table.labels.index(key) # remember columns of requested data
|
||||||
|
if datatype == 'scalar':
|
||||||
|
array[datatype][label] = vtk.vtkDoubleArray()
|
||||||
|
array[datatype][label].SetNumberOfComponents(1)
|
||||||
|
array[datatype][label].SetName(label)
|
||||||
|
elif datatype == 'color':
|
||||||
|
array[datatype][label] = vtk.vtkUnsignedCharArray()
|
||||||
|
array[datatype][label].SetNumberOfComponents(3)
|
||||||
|
array[datatype][label].SetName(label)
|
||||||
|
if not foundIt:
|
||||||
|
file['croak'].write('column %s not found...\n'%label)
|
||||||
|
|
||||||
|
# ------------------------------------------ process data ---------------------------------------
|
||||||
|
|
||||||
|
while table.data_read(): # read next data line of ASCII table
|
||||||
|
|
||||||
|
for datatype,labels in active.items(): # loop over scalar,color
|
||||||
|
for label in labels: # loop over all requested items
|
||||||
|
theData = table.data[column[datatype][label]:\
|
||||||
|
column[datatype][label]+datainfo[datatype]['len']] # read strings
|
||||||
|
if datatype == 'color':
|
||||||
|
theData = map(lambda x: int(255.*float(x)),theData)
|
||||||
|
array[datatype][label].InsertNextTuple3(theData[0],theData[1],theData[2],)
|
||||||
|
elif datatype == 'scalar':
|
||||||
|
array[datatype][label].InsertNextValue(float(theData[0]))
|
||||||
|
|
||||||
|
file['input'].close() # close input ASCII table
|
||||||
|
|
||||||
|
# ------------------------------------------ add data ---------------------------------------
|
||||||
|
|
||||||
|
for datatype,labels in active.items(): # loop over scalar,color
|
||||||
|
if datatype == 'color':
|
||||||
|
# Polydata.GetPointData().SetScalars(array[datatype][labels[0]])
|
||||||
|
rGrid.GetCellData().SetScalars(array[datatype][labels[0]])
|
||||||
|
for label in labels: # loop over all requested items
|
||||||
|
# Polydata.GetPointData().AddArray(array[datatype][label])
|
||||||
|
rGrid.GetCellData().AddArray(array[datatype][label])
|
||||||
|
|
||||||
|
rGrid.Modified()
|
||||||
|
if vtk.VTK_MAJOR_VERSION <= 5:
|
||||||
|
rGrid.Update()
|
||||||
|
|
||||||
|
# ------------------------------------------ output result ---------------------------------------
|
||||||
|
|
||||||
|
writer = vtk.vtkXMLRectilinearGridWriter()
|
||||||
|
writer.SetDataModeToBinary()
|
||||||
|
writer.SetCompressorTypeToZLib()
|
||||||
|
writer.SetFileName(os.path.splitext(options.vtk)[0]+'_added.vtr')
|
||||||
|
if vtk.VTK_MAJOR_VERSION <= 5:
|
||||||
|
writer.SetInput(rGrid)
|
||||||
|
else:
|
||||||
|
writer.SetInputData(rGrid)
|
||||||
|
writer.Write()
|
||||||
Loading…
Reference in New Issue