85 lines
3.1 KiB
Python
Executable File
85 lines
3.1 KiB
Python
Executable File
#!/usr/bin/env python2.7
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# -*- coding: UTF-8 no BOM -*-
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import os,h5py
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import numpy as np
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from optparse import OptionParser
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import damask
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scriptName = os.path.splitext(os.path.basename(__file__))[0]
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scriptID = ' '.join([scriptName,damask.version])
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#--------------------------------------------------------------------------------------------------
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# MAIN
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#--------------------------------------------------------------------------------------------------
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parser = OptionParser(option_class=damask.extendableOption, usage='%prog [dream3dfile[s]]', description = """
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Convert DREAM3D file to ASCIItable. Works for 3D datasets, but, hey, its not called DREAM2D ;)
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""", version = scriptID)
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parser.add_option('-d','--data',
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dest = 'data',
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action = 'extend', metavar = '<string LIST>',
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help = 'data to extract from DREAM3D file')
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parser.add_option('-c','--container',
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dest = 'container', metavar = 'string',
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help = 'root container(group) in which data is stored [%default]')
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parser.set_defaults(container="ImageDataContainer",
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)
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(options, filenames) = parser.parse_args()
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if options.data is None:
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parser.error('No data selected')
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rootDir ='DataContainers/'+options.container
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# --- loop over input files -------------------------------------------------------------------------
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if filenames == []: parser.error('no input file specified.')
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for name in filenames:
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try:
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table = damask.ASCIItable(outname = os.path.splitext(name)[0]+'.txt',
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buffered = False
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)
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except: continue
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damask.util.report(scriptName,name)
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inFile = h5py.File(name, 'r')
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try:
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grid = inFile[rootDir+'/_SIMPL_GEOMETRY/DIMENSIONS'][...]
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except:
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damask.util.croak('Group {} not found'.format(options.container))
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table.close(dismiss = True)
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continue
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# --- read comments --------------------------------------------------------------------------------
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coords = (np.mgrid[0:grid[2], 0:grid[1], 0: grid[0]]).reshape(3, -1).T
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table.data = (np.fliplr(coords)*inFile[rootDir+'/_SIMPL_GEOMETRY/SPACING'][...] \
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+ inFile[rootDir+'/_SIMPL_GEOMETRY/ORIGIN'][...] \
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+ inFile[rootDir+'/_SIMPL_GEOMETRY/SPACING'][...]*0.5)
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labels = ['1_pos','2_pos','3_pos']
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for data in options.data:
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try:
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l = np.prod(inFile[rootDir+'/CellData/'+data].shape[3:])
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labels+=['{}_{}'.format(i+1,data.replace(' ','')) for i in range(l)] if l >1 else [data.replace(' ','')]
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except KeyError:
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damask.util.croak('Data {} not found'.format(data))
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pass
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table.data = np.hstack((table.data,
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inFile[rootDir+'/CellData/'+data][...].reshape(grid.prod(),l)))
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# ------------------------------------------ assemble header ---------------------------------------
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table.labels_clear()
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table.labels_append(labels,reset = True)
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table.head_write()
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# ------------------------------------------ finalize output ---------------------------------------
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table.data_writeArray()
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table.close()
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