#!/usr/bin/env python # -*- coding: UTF-8 no BOM -*- import os,sys,vtk import numpy as np import damask from optparse import OptionParser scriptName = os.path.splitext(os.path.basename(__file__))[0] scriptID = ' '.join([scriptName,damask.version]) # -------------------------------------------------------------------- # MAIN # -------------------------------------------------------------------- parser = OptionParser(option_class=damask.extendableOption, usage='%prog options [file[s]]', description = """ Create regular voxel grid from points in an ASCIItable (or geom file). """, version = scriptID) parser.add_option('-m', '--mode', dest = 'mode', type = 'choice', choices = ['cell','point'], help = 'cell-centered or point-centered coordinates ') parser.add_option('-c', '--coordinates', dest = 'coords', type = 'string', metavar = 'string', help = 'coordinate label [%default]') parser.set_defaults(coords = 'pos', mode = 'cell' ) (options, filenames) = parser.parse_args() # --- loop over input files ------------------------------------------------------------------------- if filenames == []: filenames = [None] for name in filenames: isGeom = name.endswith('.geom') try: table = damask.ASCIItable(name = name, buffered = False, labeled = not isGeom, readonly = True, ) except: continue damask.util.report(scriptName,name) # --- interpret header ---------------------------------------------------------------------------- table.head_read() remarks = [] errors = [] coordDim = 3 if isGeom else table.label_dimension(options.coords) if not 3 >= coordDim >= 1: errors.append('coordinates "{}" need to have one, two, or three dimensions.'.format(options.coords)) elif coordDim < 3: remarks.append('appending {} dimensions to coordinates "{}"...'.format(3-coordDim,options.coords)) if remarks != []: damask.util.croak(remarks) if errors != []: damask.util.croak(errors) table.close(dismiss=True) continue # --------------- figure out size and grid --------------------------------------------------------- if isGeom: info,extra_header = table.head_getGeom() coords = [np.linspace(info['origin'][i], info['origin'][i]+info['size'][i], num = info['grid'][i]+1, endpoint = True, ) for i in xrange(3)] else: table.data_readArray(options.coords) if len(table.data.shape) < 2: table.data.shape += (1,) # expand to 2D shape if table.data.shape[1] < 3: table.data = np.hstack((table.data, np.zeros((table.data.shape[0], 3-table.data.shape[1]),dtype='f'))) # fill coords up to 3D with zeros coords = [np.unique(table.data[:,i]) for i in xrange(3)] if options.mode == 'cell': coords = [0.5 * np.array([3.0 * coords[i][0] - coords[i][0 + len(coords[i]) > 1]] + \ [coords[i][j-1] + coords[i][j] for j in xrange(1,len(coords[i]))] + \ [3.0 * coords[i][-1] - coords[i][-1 - (len(coords[i]) > 1)]]) for i in xrange(3)] grid = np.array(map(len,coords),'i') N = grid.prod() if options.mode == 'point' or isGeom else (grid-1).prod() if not isGeom and N != len(table.data): errors.append('data count {} does not match grid {}x{}x{}.'.format(N,*(grid - (options.mode == 'cell')) )) if errors != []: damask.util.croak(errors) table.close(dismiss = True) continue # ------------------------------------------ process data --------------------------------------- rGrid = vtk.vtkRectilinearGrid() coordArray = [vtk.vtkDoubleArray(), vtk.vtkDoubleArray(), vtk.vtkDoubleArray(), ] rGrid.SetDimensions(*grid) for i,points in enumerate(coords): for point in points: coordArray[i].InsertNextValue(point) rGrid.SetXCoordinates(coordArray[0]) rGrid.SetYCoordinates(coordArray[1]) rGrid.SetZCoordinates(coordArray[2]) # ------------------------------------------ output result --------------------------------------- if name: writer = vtk.vtkXMLRectilinearGridWriter() (directory,filename) = os.path.split(name) writer.SetDataModeToBinary() writer.SetCompressorTypeToZLib() writer.SetFileName(os.path.join(directory,os.path.splitext(filename)[0] + ('' if isGeom else '_{}({})'.format(options.coords, options.mode)) + '.' + writer.GetDefaultFileExtension())) else: writer = vtk.vtkDataSetWriter() writer.WriteToOutputStringOn() writer.SetHeader('# powered by '+scriptID) if vtk.VTK_MAJOR_VERSION <= 5: writer.SetInput(rGrid) else: writer.SetInputData(rGrid) writer.Write() if name is None: sys.stdout.write(writer.GetOutputString()[0:writer.GetOutputStringLength()]) table.close()