added possibility to have microstructure indices for seed points. Hence, multiple seed points can belong to the same final grain.
This commit is contained in:
Philip Eisenlohr
parent
b7e86f5c23
commit
fafa69b846
|
|
@ -5,6 +5,9 @@ import os,sys,math,string,re,numpy
|
|||
import damask
|
||||
from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
|
||||
|
||||
scriptID = '$Id$'
|
||||
scriptName = scriptID.split()[1]
|
||||
|
||||
#--------------------------------------------------------------------------------------------------
|
||||
class extendedOption(Option):
|
||||
#--------------------------------------------------------------------------------------------------
|
||||
|
|
@ -48,17 +51,26 @@ def meshgrid2(*arrs):
|
|||
#--------------------------------------------------------------------------------------------------
|
||||
# MAIN
|
||||
#--------------------------------------------------------------------------------------------------
|
||||
synonyms = {
|
||||
'grid': ['resolution'],
|
||||
'size': ['dimension'],
|
||||
}
|
||||
identifiers = {
|
||||
'grid': ['a','b','c'],
|
||||
'grid': ['a','b','c'],
|
||||
'size': ['x','y','z'],
|
||||
'origin': ['x','y','z'],
|
||||
}
|
||||
mappings = {
|
||||
'grid': lambda x: int(x),
|
||||
'grains': lambda x: int(x),
|
||||
'grid': lambda x: int(x),
|
||||
'size': lambda x: float(x),
|
||||
'origin': lambda x: float(x),
|
||||
'homogenization': lambda x: int(x),
|
||||
'microstructures': lambda x: int(x),
|
||||
}
|
||||
|
||||
parser = OptionParser(option_class=extendedOption, usage='%prog options [file[s]]', description = """
|
||||
Generate geometry description and material configuration by standard Voronoi tessellation of given seeds file.
|
||||
""" + string.replace('$Id$','\n','\\n')
|
||||
""" + string.replace(scriptID,'\n','\\n')
|
||||
)
|
||||
|
||||
parser.add_option('-g', '--grid', dest='grid', type='int', nargs = 3, \
|
||||
|
|
@ -103,25 +115,40 @@ else:
|
|||
|
||||
#--- loop over input files ------------------------------------------------------------------------
|
||||
for file in files:
|
||||
if file['name'] != 'STDIN': file['croak'].write(file['name']+'\n')
|
||||
if file['name'] != 'STDIN': file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
|
||||
else: file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
|
||||
|
||||
theTable = damask.ASCIItable(file['input'],file['output'])
|
||||
theTable.head_read()
|
||||
theData = theTable.data_asArray(['x','y','z','phi1','Phi','phi2'])
|
||||
|
||||
coords = theTable.data_asArray(['x','y','z'])
|
||||
if numpy.all(theTable.labels_index(['phi1','Phi','phi2']) != -1):
|
||||
eulers = theTable.data_asArray(['phi1','Phi','phi2'])
|
||||
if theTable.labels_index('microstructure') != -1:
|
||||
grain = theTable.data_asArray(['microstructure'])
|
||||
grainIDs = numpy.unique(grain)
|
||||
else:
|
||||
grain = 1+numpy.arange(len(eulers))
|
||||
grainIDs = grain
|
||||
|
||||
#--- interpret header ----------------------------------------------------------------------------
|
||||
info = {
|
||||
'grid': numpy.zeros(3,'i'),
|
||||
'size': numpy.array(options.size),
|
||||
'origin': numpy.zeros(3,'d'),
|
||||
'grains': 0,
|
||||
'microstructures': 0,
|
||||
'homogenization': options.homogenization,
|
||||
}
|
||||
newInfo = {
|
||||
'microstructures': 0,
|
||||
}
|
||||
extra_header = []
|
||||
|
||||
for header in theTable.info:
|
||||
headitems = map(str.lower,header.split())
|
||||
if len(headitems) == 0: continue # skip blank lines
|
||||
if headitems[0] == 'resolution': headitems[0] = 'grid'
|
||||
if len(headitems) == 0: continue
|
||||
for synonym,alternatives in synonyms.iteritems():
|
||||
if headitems[0] in alternatives: headitems[0] = synonym
|
||||
if headitems[0] in mappings.keys():
|
||||
if headitems[0] in identifiers.keys():
|
||||
for i in xrange(len(identifiers[headitems[0]])):
|
||||
|
|
@ -129,10 +156,12 @@ for file in files:
|
|||
mappings[headitems[0]](headitems[headitems.index(identifiers[headitems[0]][i])+1])
|
||||
else:
|
||||
info[headitems[0]] = mappings[headitems[0]](headitems[1])
|
||||
else:
|
||||
extra_header.append(header)
|
||||
|
||||
if info['grains'] != len(theData):
|
||||
if info['microstructures'] != len(grainIDs):
|
||||
file['croak'].write('grain data not matching grain count...\n')
|
||||
info['grains'] = min(info['grains'],len(theData))
|
||||
info['microstructures'] = min(info['microstructures'],len(grainIDs))
|
||||
|
||||
if 0 not in options.grid: # user-specified grid
|
||||
info['grid'] = numpy.array(options.grid)
|
||||
|
|
@ -142,7 +171,7 @@ for file in files:
|
|||
info['size'][i] = float(info['grid'][i])/max(info['grid'])
|
||||
file['croak'].write('rescaling size %s...\n'%{0:'x',1:'y',2:'z'}[i])
|
||||
|
||||
file['croak'].write('grains to map: %i\n'%info['grains'] + \
|
||||
file['croak'].write('grains to map: %i\n'%info['microstructures'] + \
|
||||
'grid a b c: %s\n'%(' x '.join(map(str,info['grid']))) + \
|
||||
'size x y z: %s\n'%(' x '.join(map(str,info['size']))) + \
|
||||
'origin x y z: %s\n'%(' : '.join(map(str,info['origin']))) + \
|
||||
|
|
@ -154,26 +183,30 @@ for file in files:
|
|||
if numpy.any(info['size'] <= 0.0):
|
||||
file['croak'].write('invalid size x y z.\n')
|
||||
continue
|
||||
if info['grains'] == 0:
|
||||
if info['microstructures'] == 0:
|
||||
file['croak'].write('no grain info found.\n')
|
||||
continue
|
||||
|
||||
#--- prepare data ---------------------------------------------------------------------------------
|
||||
coords = (theData[:,:3]*info['size']).transpose()
|
||||
eulers = (theData[:,3:6]).transpose()
|
||||
coords = (coords*info['size']).transpose()
|
||||
eulers = eulers.transpose()
|
||||
|
||||
#--- switch according to task ---------------------------------------------------------------------
|
||||
if options.config: # write config file
|
||||
formatwidth = 1+int(math.log10(info['microstructures']))
|
||||
file['output'].write('<microstructure>\n')
|
||||
for i in xrange(info['grains']):
|
||||
file['output'].write('\n[Grain%s]\n'%(str(i+1).zfill(formatwidth)) + \
|
||||
for i in grainIDs:
|
||||
file['output'].write('\n[Grain%s]\n'%(str(i).zfill(formatwidth)) + \
|
||||
'crystallite %i\n'%options.crystallite + \
|
||||
'(constituent)\tphase %i\ttexture %s\tfraction 1.0\n'%(options.phase,str(i+1).rjust(formatwidth)))
|
||||
'(constituent)\tphase %i\ttexture %s\tfraction 1.0\n'%(options.phase,str(i).rjust(formatwidth)))
|
||||
|
||||
file['output'].write('\n<texture>\n')
|
||||
for i in xrange(info['grains']):
|
||||
file['output'].write('\n[Grain%s]\n'%(str(i+1).zfill(formatwidth)) + \
|
||||
'(gauss)\tphi1 %g\tPhi %g\tphi2 %g\tscatter 0.0\tfraction 1.0\n'%(eulers[0,i],eulers[1,i],eulers[2,i]))
|
||||
for i in grainIDs:
|
||||
eulerID = numpy.nonzero(grain == i)[0][0] # find first occurrence of this grain id
|
||||
file['output'].write('\n[Grain%s]\n'%(str(i).zfill(formatwidth)) + \
|
||||
'(gauss)\tphi1 %g\tPhi %g\tphi2 %g\tscatter 0.0\tfraction 1.0\n'%(eulers[0,eulerID],
|
||||
eulers[1,eulerID],
|
||||
eulers[2,eulerID]))
|
||||
|
||||
else: # write geometry file
|
||||
x = (numpy.arange(info['grid'][0])+0.5)*info['size'][0]/info['grid'][0]
|
||||
|
|
@ -181,32 +214,37 @@ for file in files:
|
|||
z = (numpy.arange(info['grid'][2])+0.5)*info['size'][2]/info['grid'][2]
|
||||
undeformed = numpy.vstack(map(numpy.ravel, meshgrid2(x, y, z)))
|
||||
|
||||
file['croak'].write('tesselating...\n')
|
||||
file['croak'].write('tessellating...\n')
|
||||
indices = damask.core.math.periodicNearestNeighbor(\
|
||||
info['size'],\
|
||||
numpy.eye(3),\
|
||||
undeformed,coords)//3**3 + 1 # floor division to kill periodic images
|
||||
missing = 0
|
||||
for i in xrange(info['grains']):
|
||||
if i+1 not in indices: missing += 1
|
||||
file['croak'].write({True:'all',False:'only'}[missing == 0] + ' %i grains mapped.\n'%(info['grains']-missing))
|
||||
indices = grain[indices-1]
|
||||
|
||||
newInfo['microstructures'] = info['microstructures']
|
||||
for i in grainIDs:
|
||||
if i not in indices: newInfo['microstructures'] -= 1
|
||||
file['croak'].write({True:'all',False:'only'}[newInfo['microstructures'] == info['microstructures'] ] +
|
||||
' %i'%newInfo['microstructures'] +
|
||||
{True:'',False:' out of %i'%info['microstructures']}[newInfo['microstructures'] == info['microstructures']] +
|
||||
' grains mapped.\n')
|
||||
|
||||
#--- write header ---------------------------------------------------------------------------------
|
||||
theTable.labels_clear()
|
||||
theTable.info_clear()
|
||||
theTable.info_append([
|
||||
"$Id$",
|
||||
theTable.info_append(extra_header+[
|
||||
scriptID,
|
||||
"grid\ta %i\tb %i\tc %i"%(info['grid'][0],info['grid'][1],info['grid'][2],),
|
||||
"size\tx %f\ty %f\tz %f"%(info['size'][0],info['size'][1],info['size'][2],),
|
||||
"origin\tx %f\ty %f\tz %f"%(info['origin'][0],info['origin'][1],info['origin'][2],),
|
||||
"homogenization\t%i"%info['homogenization'],
|
||||
"microstructures\t%i"%(info['grains']-missing),
|
||||
"microstructures\t%i"%(newInfo['microstructures']),
|
||||
])
|
||||
theTable.head_write()
|
||||
theTable.output_flush()
|
||||
|
||||
# --- write microstructure information ------------------------------------------------------------
|
||||
formatwidth = 1+int(math.log10(info['grains']))
|
||||
formatwidth = 1+int(math.log10(newInfo['microstructures']))
|
||||
theTable.data = indices.reshape(info['grid'][1]*info['grid'][2],info['grid'][0])
|
||||
theTable.data_writeArray('%%%ii'%(formatwidth))
|
||||
|
||||
|
|
|
|||
Loading…
Reference in New Issue