150 lines
5.8 KiB
Python
Executable File
150 lines
5.8 KiB
Python
Executable File
#!/usr/bin/env python
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# -*- coding: UTF-8 no BOM -*-
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import os,sys,string,re,random,math,numpy as np
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import damask
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from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
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scriptID = '$Id$'
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scriptName = scriptID.split()[1]
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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 seeds file by poking at 45 degree through given geom file.
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Mimics APS Beamline 34-ID-E DAXM poking.
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""", version = scriptID)
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parser.add_option('-N', '--points',
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dest = 'N',
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type = 'int', metavar = 'int',
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help = 'number of poking locations [%default]')
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parser.add_option('-z', '--planes',
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dest = 'z',
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type = 'float', nargs = 2, metavar='float float',
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help = 'top and bottom z plane')
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parser.add_option('-x',
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action = 'store_true',
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dest = 'x',
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help = 'poke 45 deg along x')
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parser.add_option('-y',
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action = 'store_true',
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dest = 'y',
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help = 'poke 45 deg along y')
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parser.add_option('-p','--position',
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dest = 'position',
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type = 'string', metavar = 'string',
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help = 'column label for coordinates [%default]')
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parser.set_defaults(x = False,
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y = False,
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N = 16,
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position = 'pos',
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)
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(options,filenames) = parser.parse_args()
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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:
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table = damask.ASCIItable(name = name,
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outname = os.path.splitext(name])[0]+'_poked_{}.seeds'.format(options.N) if name else name,
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buffered = False, labeled = False)
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except: continue
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table.croak('\033[1m'+scriptName+'\033[0m'+(': '+name if name else ''))
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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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table.croak(['grid a b c: %s'%(' x '.join(map(str,info['grid']))),
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'size x y z: %s'%(' x '.join(map(str,info['size']))),
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'origin x y z: %s'%(' : '.join(map(str,info['origin']))),
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'homogenization: %i'%info['homogenization'],
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'microstructures: %i'%info['microstructures'],
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])
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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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table.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']).reshape(info['grid'],order='F') # read microstructure
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# --- do work ------------------------------------------------------------------------------------
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newInfo = {
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'microstructures': 0,
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}
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Nx = int(options.N/math.sqrt(options.N*info['size'][1]/info['size'][0]))
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Ny = int(options.N/math.sqrt(options.N*info['size'][0]/info['size'][1]))
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Nz = int((max(options.z)-min(options.z))/info['size'][2]*info['grid'][2])
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table.croak('poking {} x {} x {}...'.format(Nx,Ny,Nz))
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seeds = np.zeros((Nx*Ny*Nz,4),'d')
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grid = np.zeros(3,'i')
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offset = min(options.z)/info['size'][2]*info['grid'][2] # offset due to lower z-plane
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n = 0
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for i in xrange(Nx):
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grid[0] = round((i+0.5)*info['grid'][0]/Nx-0.5)
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for j in xrange(Ny):
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grid[1] = round((j+0.5)*info['grid'][1]/Ny-0.5)
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for k in xrange(Nz):
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grid[2] = offset + k
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grid %= info['grid']
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coordinates = (0.5+grid)*info['size']/info['grid']
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seeds[n,0:3] = coordinates/info['size'] # normalize coordinates to box
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seeds[n, 3] = microstructure[grid[0],grid[1],grid[2]]
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if options.x: grid[0] += 1
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if options.y: grid[1] += 1
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n += 1
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newInfo['microstructures'] = len(np.unique(seeds[:,3]))
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# --- report ---------------------------------------------------------------------------------------
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remarks = []
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if ( newInfo['microstructures'] != info['microstructures']): remarks.append('--> microstructures: %i'%newInfo['microstructures'])
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if remarks != []: table.croak(remarks)
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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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"poking\ta {}\tb {}\tc {}".format(Nx,Ny,Nz),
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"grid\ta {}\tb {}\tc {}".format(newInfo['grid']),
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"size\tx {}\ty {}\tz {}".format(newInfo['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(newInfo['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.position) 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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theTable.data = seeds
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theTable.data_writeArray()
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# --- output finalization --------------------------------------------------------------------------
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table.close() # close ASCII table
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