#!/usr/bin/env python
# -*- coding: utf-8 -*-
import os,sys,math,string,numpy, damask
from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
# -----------------------------
class extendedOption(Option):
# -----------------------------
# used for definition of new option parser action 'extend', which enables to take multiple option arguments
# taken from online tutorial http://docs.python.org/library/optparse.html
ACTIONS = Option.ACTIONS + ("extend",)
STORE_ACTIONS = Option.STORE_ACTIONS + ("extend",)
TYPED_ACTIONS = Option.TYPED_ACTIONS + ("extend",)
ALWAYS_TYPED_ACTIONS = Option.ALWAYS_TYPED_ACTIONS + ("extend",)
def take_action(self, action, dest, opt, value, values, parser):
if action == "extend":
lvalue = value.split(",")
values.ensure_value(dest, []).extend(lvalue)
else:
Option.take_action(self, action, dest, opt, value, values, parser)
# --------------------------------------------------------------------
# MAIN
# --------------------------------------------------------------------
parser = OptionParser(option_class=extendedOption, usage='%prog options [file[s]]', description = """
generates geom file and material_config file using seeds file
""" + string.replace('$Id$','\n','\\n')
)
parser.add_option('-d', '--dimension', dest='dimension', type='float', nargs = 3, \
help='x,y,z dimension of specimen')
parser.add_option('-r', '--resolution', dest='resolution', type='int', nargs = 3, \
help='a,b,c resolution of specimen')
parser.add_option('-o', '--outputName', dest='outputName', type='string', nargs = 1, \
help='Output Name')
parser.set_defaults(resolution = (0,0,0))
parser.set_defaults(dimension = (0.0,0.0,0.0))
parser.set_defaults(outputName = '')
(options,filenames) = parser.parse_args()
# ------------------------------------------ setup file handles ---------------------------------------
files = []
if filenames == []:
files.append({'name':'STDIN', 'input':sys.stdin, 'output':sys.stdout})
else:
for name in filenames:
if os.path.splitext(name)[1]=='': name = name+'.seeds'
if options.outputName=='': options.outputName = name
if os.path.exists(name):
files.append({'name':name,\
'input':open(name),\
'geom':open(os.path.splitext(options.outputName)[0]+'.geom','w+'),\
'material.config':open(os.path.splitext(options.outputName)[0]+'_material.config','w+')})
# ------------------------------------------ loop over input files ---------------------------------------
for file in files:
spatialDim = 3
unmapped = 0
if file['name'] != 'STDIN': print file['name']
Favg = numpy.array(([1.0,0.0,0.0],\
[0.0,1.0,0.0],\
[0.0,0.0,1.0]),'d')
for lineCount, line in enumerate(file['input']):
words = line.split()
if('head' in line): headCount=int(words[0])+1
if(lineCount<=headCount):
if('grains'.lower()==words[0]):
N_seeds=int(words[1])
checkGrain=numpy.zeros(N_seeds)
if 'resolution'==words[0] :
if options.resolution==(0,0,0):
resolution=[int(words[2]),int(words[4]),int(words[6])]
else:
resolution = [options.resolution[0],options.resolution[1],options.resolution[2]]
if lineCount==headCount: # all header info there, allocating arrays
if resolution[2]==1: spatialDim=2
validDim = numpy.zeros(3)
dimension = numpy.zeros(3)
for i in xrange(3):
if(options.dimension[i]>0): validDim[i]= 1
for i in xrange(3):
if(any(validDim) and options.dimension[i]==0):
dimension[i] = max(numpy.array(options.dimension,dtype='float')/resolution) *resolution[i]
print 'rescaling invalid dimension '+str(i+1)
if(any(validDim)==0):
print 'No valid dimension specified, rescaling all dimensions'
for i in xrange(spatialDim): dimension[i]=1.0/max(resolution)*resolution[i]
if(all(validDim)): dimension= [options.dimension[0],options.dimension[1],options.dimension[2]]
coords = numpy.zeros((spatialDim,N_seeds),'d')
eulers = numpy.zeros((N_seeds,3),'d')
else:
Npoints = resolution[0]*resolution[1]*resolution[2]
coords[0:spatialDim,lineCount-headCount] = numpy.array(words[0:spatialDim],'d')
eulers[lineCount-headCount,0:3] = words[3:6]
undeformed = numpy.zeros((spatialDim,Npoints),'d').reshape(spatialDim,Npoints)
for i in xrange(spatialDim):
for j in xrange(N_seeds):
if(coords[i][j]>=1.0 or coords[i][j]<0.0):
print 'WARNING: Seed Coordinate '+ str(coords[i][j]) +' located outside Grid '
digits = 1+int(math.log10(int(N_seeds)))
file['geom'].write('3 header' +'\n')
file['geom'].write('resolution a '+ str(resolution[0])+ ' b '+str(resolution[1])+ ' c '+str( resolution[2])+'\n')
file['geom'].write('dimension x '+ str(dimension[0]) + ' y '+ str(dimension[1])+ ' z '+ str( dimension[2])+'\n')
file['geom'].write('homogenization 1'+'\n')
file['material.config'].write('<microstructure>'+'\n')
for i in xrange(N_seeds):
file['material.config'].write('[Grain' +str( i+1).zfill(digits)+']'+'\n')
file['material.config'].write('crystallite 1'+'\n')
file['material.config'].write('(constituent) phase 1 texture '+ str(i+1).zfill(digits)+ ' fraction 1.0'+'\n')
file['material.config'].write('\n'+'<texture>'+'\n')
for i in xrange(N_seeds):
file['material.config'].write('[Grain'+ str(i+1).zfill(digits)+ ']'+'\n')
file['material.config'].write('(gauss) phi1 '+ str(eulers[i][0])+ ' Phi '+ str(eulers[i][1])+ \
' Phi2 '+ str(eulers[i][2])+ ' scatter 0.0 fraction 1.0'+'\n')
shift = dimension[0:spatialDim]/numpy.array( resolution,dtype='float')[0:spatialDim]*0.5 # shift by half of side length to center of element
for i in xrange(Npoints):
undeformed[0,i] = dimension[0]\
* float(i % resolution[0])\
/float( resolution[0])
undeformed[1,i] = dimension[1]\
* float(i// resolution[0] % resolution[1])\
/float( resolution[1])
if spatialDim==3:
undeformed[2,i] = dimension[2]\
* float(i// resolution[0]// resolution[1] % resolution[2])\
/float( resolution[2])
undeformed[0:spatialDim,i] += shift
indices=damask.core.math.math_nearestNeighborSearch(spatialDim,Favg,numpy.array( dimension,dtype='float'),Npoints,N_seeds,undeformed,coords)
for n in xrange(Npoints):
file['geom'].write( str(indices[n]//3**spatialDim+1).zfill(digits)+{True:'\n',False:' '}[(n+1)% resolution[0] == 0])
grainIndex=indices//3**spatialDim+1
for i in xrange(1,N_seeds+1):
if i not in grainIndex: unmapped+=1
if(unmapped == 0): print 'All Grains Mapped'
else: print 'Only '+str(N_seeds-unmapped )+' Grains mapped'
file['geom'].close()
file['material.config'].close()
file['input'].close()