117 lines
4.8 KiB
Python
Executable File
117 lines
4.8 KiB
Python
Executable File
#!/usr/bin/env python2.7
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# -*- coding: UTF-8 no BOM -*-
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import os,sys
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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 options [file[s]]', description = """
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Create seed file taking microstructure indices from given geom file.
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Indices can be black-listed or white-listed.
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""", version = scriptID)
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parser.add_option('-w',
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'--white',
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action = 'extend', metavar = '<int LIST>',
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dest = 'whitelist',
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help = 'whitelist of grain IDs')
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parser.add_option('-b',
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'--black',
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action = 'extend', metavar = '<int LIST>',
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dest = 'blacklist',
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help = 'blacklist of grain IDs')
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parser.add_option('-p',
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'--pos', '--seedposition',
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dest = 'pos',
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type = 'string', metavar = 'string',
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help = 'label of coordinates [%default]')
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parser.set_defaults(whitelist = [],
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blacklist = [],
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pos = 'pos',
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)
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(options,filenames) = parser.parse_args()
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options.whitelist = map(int,options.whitelist)
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options.blacklist = map(int,options.blacklist)
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# --- loop over output files -------------------------------------------------------------------------
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if filenames == []: filenames = [None]
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for name in filenames:
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try: table = damask.ASCIItable(name = name,
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outname = os.path.splitext(name)[0]+'.seeds' if name else name,
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buffered = False,
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labeled = False)
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except: continue
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damask.util.report(scriptName,name)
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# --- interpret header ----------------------------------------------------------------------------
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table.head_read()
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info,extra_header = table.head_getGeom()
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damask.util.report_geom(info)
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errors = []
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if np.any(info['grid'] < 1): errors.append('invalid grid a b c.')
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if np.any(info['size'] <= 0.0): errors.append('invalid size x y z.')
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if errors != []:
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damask.util.croak(errors)
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table.close(dismiss = True)
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continue
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# --- read data ------------------------------------------------------------------------------------
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microstructure = table.microstructure_read(info['grid']) # read (linear) microstructure
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# --- generate grid --------------------------------------------------------------------------------
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x = (0.5 + np.arange(info['grid'][0],dtype=float))/info['grid'][0]*info['size'][0]+info['origin'][0]
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y = (0.5 + np.arange(info['grid'][1],dtype=float))/info['grid'][1]*info['size'][1]+info['origin'][1]
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z = (0.5 + np.arange(info['grid'][2],dtype=float))/info['grid'][2]*info['size'][2]+info['origin'][2]
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xx = np.tile( x, info['grid'][1]* info['grid'][2])
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yy = np.tile(np.repeat(y,info['grid'][0] ),info['grid'][2])
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zz = np.repeat(z,info['grid'][0]*info['grid'][1])
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mask = np.logical_and(np.in1d(microstructure,options.whitelist,invert=False) if options.whitelist != []
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else np.full_like(microstructure,True,dtype=bool),
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np.in1d(microstructure,options.blacklist,invert=True ) if options.blacklist != []
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else np.full_like(microstructure,True,dtype=bool))
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# ------------------------------------------ assemble header ---------------------------------------
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table.info_clear()
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table.info_append(extra_header+[
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scriptID + ' ' + ' '.join(sys.argv[1:]),
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"grid\ta {}\tb {}\tc {}".format(*info['grid']),
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"size\tx {}\ty {}\tz {}".format(*info['size']),
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"origin\tx {}\ty {}\tz {}".format(*info['origin']),
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"homogenization\t{}".format(info['homogenization']),
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"microstructures\t{}".format(info['microstructures']),
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])
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table.labels_clear()
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table.labels_append(['{dim}_{label}'.format(dim = 1+i,label = options.pos) for i in range(3)]+['microstructure'])
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table.head_write()
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table.output_flush()
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# --- write seeds information ------------------------------------------------------------
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table.data = np.squeeze(np.dstack((xx,yy,zz,microstructure)))[mask]
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table.data_writeArray()
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# ------------------------------------------ finalize output ---------------------------------------
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table.close()
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