added script to convert data used by R.A. Lebensohn to spectral solver (geom, material.config) format
This commit is contained in:
Martin Diehl
parent
7e0ea5dd04
commit
8a66693001
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@ -34,17 +34,17 @@ Dual phases can be discriminated based on threshold value in a given data column
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parser.add_option('--column', dest='column', type='int', \
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help='data column to separate phase 1 and 2 [%default]')
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parser.add_option('-f','--threshold', dest='threshold', type='float', \
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help='threshold value to discriminate phase 1 from 2')
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help='data column to discriminate phase 1 from 2 [%default]')
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parser.add_option('-t','--threshold', dest='threshold', type='float', \
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help='threshold value to discriminate phase 1 from 2 [%default]')
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parser.add_option('--homogenization', dest='homogenization', type='int', \
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help='homogenization index to be used')
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help='homogenization index to be used [%default]')
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parser.add_option('--phase', dest='phase', type='int', nargs = 2, \
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help='two phase indices to be used %default')
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parser.add_option('--crystallite', dest='crystallite', type='int', \
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help='crystallite index to be used')
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help='crystallite index to be used [%default]')
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parser.add_option('-c', '--configuration', dest='config', action='store_true', \
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help='output material configuration')
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help='output material configuration [%default]')
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parser.set_defaults(column = 1)
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parser.set_defaults(threshold = 0.0)
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@ -0,0 +1,125 @@
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#!/usr/bin/env python
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import os,sys,math,string,numpy
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from optparse import OptionParser, Option
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# -----------------------------
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class extendableOption(Option):
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# -----------------------------
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# used for definition of new option parser action 'extend', which enables to take multiple option arguments
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# taken from online tutorial http://docs.python.org/library/optparse.html
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ACTIONS = Option.ACTIONS + ("extend",)
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STORE_ACTIONS = Option.STORE_ACTIONS + ("extend",)
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TYPED_ACTIONS = Option.TYPED_ACTIONS + ("extend",)
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ALWAYS_TYPED_ACTIONS = Option.ALWAYS_TYPED_ACTIONS + ("extend",)
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def take_action(self, action, dest, opt, value, values, parser):
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if action == "extend":
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lvalue = value.split(",")
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values.ensure_value(dest, []).extend(lvalue)
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else:
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Option.take_action(self, action, dest, opt, value, values, parser)
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# --------------------------------------------------------------------
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# MAIN
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# --------------------------------------------------------------------
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parser = OptionParser(option_class=extendableOption, usage='%prog options [file[s]]', description = """
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Generate geometry description and material configuration from input files used by R.A. Lebensohn
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""" + string.replace('$Id$','\n','\\n')
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)
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parser.add_option('--column', dest='column', type='int', \
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help='data column to discriminate phase 1 from 2 [%default]')
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parser.add_option('-t','--treshold', dest='threshold', type='float', \
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help='threshold value to discriminate phase 1 from 2 [%default]')
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parser.add_option('--homogenization', dest='homogenization', type='int', \
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help='homogenization index to be used [%default]')
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parser.add_option('--phase', dest='phase', type='int', nargs = 2, \
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help='two phase indices to be used %default')
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parser.add_option('--crystallite', dest='crystallite', type='int', \
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help='crystallite index to be used [%default]')
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parser.add_option('-c', '--configuration', dest='config', action='store_true', \
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help='output material configuration [%default]')
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parser.set_defaults(column = 7)
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parser.set_defaults(threshold = 1.0)
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parser.set_defaults(homogenization = 1)
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parser.set_defaults(phase = [1,2])
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parser.set_defaults(crystallite = 1)
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parser.set_defaults(config = False)
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(options,filenames) = parser.parse_args()
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# ------------------------------------------ setup file handles ---------------------------------------
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files = []
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if filenames == []:
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files.append({'name':'STDIN',
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'input':sys.stdin,
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'output':sys.stdout,
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'croak':sys.stderr,
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})
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else:
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for name in filenames:
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if os.path.exists(name):
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files.append({'name':name,
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'input':open(name),
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'output':open(name+'_tmp','w'),
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'croak':sys.stdout,
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})
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# ------------------------------------------ loop over input files ---------------------------------------
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for file in files:
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if file['name'] != 'STDIN': file['croak'].write(file['name']+'\n')
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point = 0
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geomdim = [0.0,0.0,0.0]
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needInfo = [True,True,True]
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resolution = [0,0,0]
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microstructure = ['<microstructure>']
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texture = ['<texture>']
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for line in file['input']:
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if line.strip():
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point += 1
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words = line.split()
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if options.config: # write configuration (line by line)
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me = str(point)
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microstructure += ['[Grain%s]\n'%me + \
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'crystallite\t%i\n'%options.crystallite + \
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'(constituent)\tphase %s\ttexture %s\tfraction 1.0\n'%(options.phase[{True:0,False:1}[float(words[options.column-1])<options.threshold]],me)
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]
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texture += ['[Grain%s]\n'%me + \
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'(gauss)\tphi1 %s\tPhi %s\tphi2 %s\tscatter 0.0\tfraction 1.0\n'%tuple(words[:3])
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]
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else:
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currPos = map(float,words[3:6])
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for i in xrange(3):
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if currPos[i] > geomdim[i]:
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geomdim[i] = currPos[i]
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resolution[i]+=1
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if options.config:
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file['output'].write('\n'.join(microstructure) + \
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'\n'.join(texture))
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else:
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file['output'].write("4 header\n" + \
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"resolution\ta %i\tb %i\tc %i\n"%tuple(resolution) + \
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"dimension\tx %g\ty %g\tz %g\n"%tuple(geomdim) + \
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"origin\tx 0\ty 0\tz 0\n" + \
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"homogenization %i\n"%options.homogenization + \
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"1 to %i\n"%(resolution[0]*resolution[1]*resolution[2]))
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# ------------------------------------------ output finalization ---------------------------------------
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if file['name'] != 'STDIN':
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file['output'].close()
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os.rename(file['name']+'_tmp',os.path.splitext(file['name'])[0] + \
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{True: '_material.config',
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False:'.geom'}[options.config])
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@ -18,6 +18,7 @@ bin_link = { \
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'patchFromReconstructedBoundaries.py',
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'randomSeeding.py',
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'geom_fromAng.py',
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'geom_fromVPSC.py',
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'geom_fromMinimalSurface.py',
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'geom_fromVoronoiTessellation.py',
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'geom_Osteon.py',
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