Merge branch 'development' of magit1.mpie.de:damask/DAMASK into development

This commit is contained in:
Martin Diehl 2017-11-05 08:31:59 +01:00
commit b4f4527ad1
2 changed files with 120 additions and 1 deletions

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v2.0.1-946-g5011e20 v2.0.1-960-geddc2a6

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#!/usr/bin/env python2.7
# -*- coding: UTF-8 no BOM -*-
import os,sys,math
from optparse import OptionParser
import damask
import pipes
scriptName = os.path.splitext(os.path.basename(__file__))[0]
scriptID = ' '.join([scriptName,damask.version])
# --------------------------------------------------------------------
# MAIN
# --------------------------------------------------------------------
parser = OptionParser(option_class=damask.extendableOption, usage='%prog options [file[s]]',
description ='generate 3D RVE from .ang files of EBSD slices .',
version = scriptID)
parser.add_option('--offset',
dest='offset',
type='float',
help='offset of EBSD slices [%default]',
metavar='float')
parser.add_option('--outname',
dest='outName',
type='string',
help='output file name [%default]', metavar='string')
parser.add_option('--vtr',
action="store_true",
dest='vtr')
parser.add_option('--geom',
action="store_true",
dest='geom')
parser.set_defaults(offset = 1.0,
outName = 'RVE3D')
(options,filenames) = parser.parse_args()
numFiles = len(filenames)
formatwidth = 1+int(math.log10(numFiles))
# copy original files to tmp files to not alter originals
for i in range(numFiles):
sliceID = 'slice' + str(i).zfill(formatwidth) + '.tmp'
strCommand = 'cp ' + pipes.quote(filenames[i]) + ' ' + sliceID
os.system(strCommand)
# modify tmp files
print('Add z-coordinates')
for i in range(numFiles):
sliceID = 'slice' + str(i).zfill(formatwidth) + '.tmp'
strCommand = 'OIMgrainFile_toTable ' + sliceID
os.system(strCommand)
strCommand = 'addCalculation --label 3Dpos --formula "np.array(#pos#.tolist()+[' + str(i*options.offset) + '])" ' + sliceID
os.system(strCommand)
# join temp files into one
print('\n Colocate files')
fileOut = open(options.outName + '.ang','w')
# take header information from 1st file
sliceID = 'slice' + str(0).zfill(formatwidth) + '.tmp'
fileRead = open(sliceID)
data = fileRead.readlines()
fileRead.close()
headerLines = int(data[0].split()[0])
fileOut.write(str(headerLines+1) + '\t header\n')
for line in data[1:headerLines]:
fileOut.write(line)
fileOut.write(scriptID + '\t' + ' '.join(sys.argv[1:]) + '\n')
for line in data[headerLines:]:
fileOut.write(line)
# append other files content without header
for i in range(numFiles-1):
sliceID = 'slice' + str(i+1).zfill(formatwidth) + '.tmp'
fileRead = open(sliceID)
data = fileRead.readlines()
fileRead.close()
headerLines = int(data[0].split()[0])
for line in data[headerLines+1:]:
fileOut.write(line)
fileOut.close()
# tidy up and add phase column
print('\n Remove temp data and add phase info')
strCommand = 'filterTable --black pos ' + options.outName + '.ang'
os.system(strCommand)
strCommand = 'reLabel --label 3Dpos --substitute pos ' + options.outName + '.ang'
os.system(strCommand)
strCommand = 'addCalculation -l phase -f 1 ' + options.outName + '.ang'
os.system(strCommand)
# create geom file when asked for
if options.geom:
print('\n Build geometry file')
strCommand = 'geom_fromTable --phase phase --eulers euler --coordinates pos ' + pipes.quote(options.outName) + '.ang'
os.system(strCommand)
# create paraview file when asked for
if options.vtr:
print('\n Build Paraview file')
strCommand = 'addIPFcolor --eulers euler --pole 0.0 0.0 1.0 ' + options.outName + '.ang'
os.system(strCommand)
strCommand = 'vtk_rectilinearGrid ' + pipes.quote(options.outName) + '.ang'
os.system(strCommand)
os.rename(pipes.quote(options.outName) + '_pos(cell)'+'.vtr', pipes.quote(options.outName) + '.vtr')
strCommand = 'vtk_addRectilinearGridData --vtk '+ pipes.quote(options.outName) + '.vtr --color IPF_001_cubic '\
+ pipes.quote(options.outName) + '.ang'
os.system(strCommand)
# delete tmp files
for i in range(numFiles):
sliceID = 'slice' + str(i).zfill(formatwidth) + '.tmp'
os.remove(sliceID)