100 lines
4.0 KiB
Python
Executable File
100 lines
4.0 KiB
Python
Executable File
#!/usr/bin/env python3
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# -*- coding: UTF-8 no BOM -*-
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import os
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import sys
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import numpy as np
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import damask
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from io import StringIO
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from scipy import ndimage
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from optparse import OptionParser
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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 options [geomfile(s)]', description = """
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Rotates spectral geometry description.
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""", version=scriptID)
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parser.add_option('-r', '--rotation',
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dest='rotation',
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type = 'float', nargs = 4, metavar = ' '.join(['float']*4),
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help = 'rotation given as angle and axis')
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parser.add_option('-e', '--eulers',
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dest = 'eulers',
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type = 'float', nargs = 3, metavar = ' '.join(['float']*3),
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help = 'rotation given as Euler angles')
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parser.add_option('-d', '--degrees',
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dest = 'degrees',
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action = 'store_true',
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help = 'Euler angles are given in degrees [%default]')
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parser.add_option('-m', '--matrix',
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dest = 'matrix',
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type = 'float', nargs = 9, metavar = ' '.join(['float']*9),
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help = 'rotation given as matrix')
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parser.add_option('-q', '--quaternion',
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dest = 'quaternion',
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type = 'float', nargs = 4, metavar = ' '.join(['float']*4),
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help = 'rotation given as quaternion')
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parser.add_option('-f', '--fill',
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dest = 'fill',
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type = 'int', metavar = 'int',
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help = 'background grain index, defaults to max + 1')
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parser.set_defaults(degrees = False,
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)
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(options, filenames) = parser.parse_args()
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if sum(x is not None for x in [options.rotation,options.eulers,options.matrix,options.quaternion]) != 1:
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parser.error('not exactly one rotation specified...')
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if options.quaternion is not None:
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eulers = damask.Rotation.fromQuaternion(np.array(options.quaternion)).asEulers(degrees=True)
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if options.rotation is not None:
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eulers = damask.Rotation.fromAxisAngle(np.array(options.rotation,degrees=True)).asEulers(degrees=True)
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if options.matrix is not None:
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eulers = damask.Rotation.fromMatrix(np.array(options.Matrix)).asEulers(degrees=True)
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if options.eulers is not None:
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eulers = damask.Rotation.fromEulers(np.array(options.eulers),degrees=True).asEulers(degrees=True)
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# --- loop over input files -------------------------------------------------------------------------
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if filenames == []: filenames = [None]
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for name in filenames:
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if name is None:
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virt_file = StringIO(''.join(sys.stdin.read()))
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geom = damask.Geom.from_file(virt_file)
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else:
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geom = damask.Geom.from_file(name)
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damask.util.report(scriptName,name)
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microstructure = geom.microstructure
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spacing = geom.get_size()/geom.get_grid()
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newGrainID = options.fill if options.fill is not None else np.nanmax(microstructure)+1
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microstructure = ndimage.rotate(microstructure,eulers[2],(0,1),order=0,
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prefilter=False,output=microstructure.dtype,cval=newGrainID) # rotation around Z
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microstructure = ndimage.rotate(microstructure,eulers[1],(1,2),order=0,
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prefilter=False,output=microstructure.dtype,cval=newGrainID) # rotation around X
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microstructure = ndimage.rotate(microstructure,eulers[0],(0,1),order=0,
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prefilter=False,output=microstructure.dtype,cval=newGrainID) # rotation around Z
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geom.microstructure = microstructure
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geom.set_size(microstructure.shape*spacing)
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geom.add_comment(scriptID + ' ' + ' '.join(sys.argv[1:]))
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damask.util.croak('\n'.join(geom.info()))
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if name is None:
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sys.stdout.write(str(geom))
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else:
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geom.to_file(name)
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