added (?correct and working?) rotation for conversion from ANG and updated bold verbosity of all other scripts
This commit is contained in:
Martin Diehl
parent
d05f1085a8
commit
2201a73a46
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@ -4,6 +4,9 @@
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import string,os,sys
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from optparse import OptionParser, Option
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scriptID = '$Id$'
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scriptName = scriptID.split()[1]
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#-------------------------------------------------------------------------------------------------
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class extendableOption(Option):
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#-------------------------------------------------------------------------------------------------
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@ -28,8 +31,7 @@ class extendableOption(Option):
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#--------------------------------------------------------------------------------------------------
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parser = OptionParser(option_class=extendableOption, usage='%prog options [file[s]]', description = """
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Converts ang files (EBSD Data) from hexagonal grid to a pixel grid
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""" + string.replace('$Id$','\n','\\n')
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""" + string.replace(scriptID,'\n','\\n')
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)
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parser.add_option('-x', dest='columnX', action='store', type='int', \
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@ -46,16 +48,25 @@ addPoints = -1
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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', 'input':sys.stdin, 'output':sys.stdout})
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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, 'input':open(name),'output':open(os.path.splitext(name)[0]\
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+'_cub'+os.path.splitext(name)[1], 'w')})
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files.append({'name':name,
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'input':open(name),
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'output':open(os.path.splitext(name)[0]+'_cub'+os.path.splitext(name)[1], '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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print file['name']
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if file['name'] != 'STDIN': file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
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else: file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
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x = 0
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for line in file['input']:
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lineSplit=line.split()
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@ -63,7 +74,7 @@ for file in files:
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if lineSplit[0]=='#':
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if len(lineSplit)>2: # possibly interesting information
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if line.split()[2]=='SqrGrid':
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print 'The file is already a square grid file.'
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file['croak'].write('The file is already a square grid file.')
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sys.exit()
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if lineSplit[1]=='XSTEP:': stepSizeX = float(lineSplit[2])
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if lineSplit[1]=='YSTEP:': stepSizeY = float(lineSplit[2])
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@ -2,7 +2,10 @@
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# -*- coding: UTF-8 no BOM -*-
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import os,sys,math,string,numpy
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from optparse import OptionParser, Option
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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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class extendableOption(Option):
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@ -29,22 +32,25 @@ class extendableOption(Option):
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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 EBSD data in given square-gridded 'ang' file.
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Two phases can be discriminated based on threshold value in a given data column.
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""" + string.replace('$Id$','\n','\\n')
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""" + string.replace(scriptID,'\n','\\n')
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)
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parser.add_option('--column', dest='column', type='int', \
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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','--threshold', dest='threshold', type='float', \
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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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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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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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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.add_option('-a', '--axis', dest='axis', type='string', nargs = 3, \
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help='axis assignement of eulerangles x,y,z = %default')
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parser.set_defaults(column = 11)
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parser.set_defaults(threshold = 0.5)
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@ -52,9 +58,14 @@ 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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parser.set_defaults(axis = ['y','x','-z'])
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(options,filenames) = parser.parse_args()
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for i in options.axis:
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if i.lower() not in ['x','+x','-x','y','+y','-y','z','+z','-z']:
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file['croak'].write('invalid axis %s %s %s' %(options.axis[0],options.axis[1],options.axis[2]))
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sys.exit()
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#--- setup file handles ---------------------------------------------------------------------------
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files = []
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if filenames == []:
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@ -75,7 +86,8 @@ else:
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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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if file['name'] != 'STDIN': file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
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else: file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
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info = {
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'grid': numpy.ones (3,'i'),
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@ -111,6 +123,7 @@ for file in files:
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'(constituent)\tphase %i\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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'rotation %s %s %s'%(options.axis[0],options.axis[1],options.axis[2]) +\
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'(gauss)\tphi1 %4.2f\tPhi %4.2f\tphi2 %4.2f\tscatter 0.0\tfraction 1.0\n'%tuple(map(lambda x: float(x)*180.0/math.pi, words[:3]))
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]
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else: # only info from header needed
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@ -138,7 +151,7 @@ for file in files:
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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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header = ['$Id$\n']
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header = [scriptID+'\n']
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header.append("grid\ta %i\tb %i\tc %i\n"%(info['grid'][0],info['grid'][1],info['grid'][2],))
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header.append("size\tx %f\ty %f\tz %f\n"%(info['size'][0],info['size'][1],info['size'][2],))
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header.append("origin\tx %f\ty %f\tz %f\n"%(info['origin'][0],info['origin'][1],info['origin'][2],))
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@ -3,7 +3,10 @@
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import os,re,sys,math,numpy,string,damask
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from scipy import ndimage
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from optparse import OptionParser, Option
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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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class extendableOption(Option):
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@ -111,8 +114,7 @@ neighborhoods = {
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parser = OptionParser(option_class=extendableOption, usage='%prog options [file[s]]', description = """
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Produce geom files containing Euclidean distance to grain structural features:
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boundaries, triple lines, and quadruple points.
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""" + string.replace('$Id$','\n','\\n')
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""" + string.replace(scriptID,'\n','\\n')
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)
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parser.add_option('-t','--type', dest='type', action='extend', type='string', \
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@ -157,7 +159,8 @@ else:
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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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if file['name'] != 'STDIN': file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
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else: file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
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firstline = file['input'].readline()
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m = re.search('(\d+)\s*head', firstline.lower())
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@ -180,7 +183,7 @@ for file in files:
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'homogenization': 0
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}
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newInfo = {
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'microstructures': 0,
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'microstructures': 0,
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}
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new_header = []
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@ -211,7 +214,7 @@ for file in files:
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file['croak'].write('invalid size x y z.\n')
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sys.exit()
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new_header.append('$Id$\n')
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new_header.append(scriptID+'\n')
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new_header.append("grid\ta %i\tb %i\tc %i\n"%(info['grid'][0],info['grid'][1],info['grid'][2],))
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new_header.append("size\tx %f\ty %f\tz %f\n"%(info['size'][0],info['size'][1],info['size'][2],))
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new_header.append("origin\tx %f\ty %f\tz %f\n"%(info['origin'][0],info['origin'][1],info['origin'][2],))
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@ -4,6 +4,9 @@
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import os,sys,string,math,numpy,time
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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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class extendedOption(Option):
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#------------------------------------------------------------------------------------------------
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@ -30,7 +33,7 @@ parser = OptionParser(option_class=extendedOption, usage='%prog', description =
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Generate a geometry file of an osteon enclosing the Harvesian canal and separated by interstitial tissue.
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The osteon phase is lamellar with a twisted plywood structure.
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Its fiber orientation is oscillating by +/- amplitude within one period.
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""" + string.replace('$Id$','\n','\\n')
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""" + string.replace(scriptID,'\n','\\n')
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)
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parser.add_option('-g', '--grid', dest='grid', type='int', nargs=2, \
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@ -131,7 +134,8 @@ for y in xrange(info['grid'][1]):
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alphaOfGrain[info['microstructures']] = alpha[y,x]
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betaOfGrain[ info['microstructures']] = beta[y,x]
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info['microstructures'] += 1
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#--- report ---------------------------------------------------------------------------------------
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else: file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
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file['croak'].write('grid a b c: %s\n'%(' x '.join(map(str,info['grid']))) + \
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'size x y z: %s\n'%(' x '.join(map(str,info['size']))) + \
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'origin x y z: %s\n'%(' : '.join(map(str,info['origin']))) + \
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@ -171,7 +175,7 @@ if options.config:
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betaOfGrain[i]))
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else:
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header = ['$Id$\n']
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header = [scriptID+'\n']
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header.append("grid\ta %i\tb %i\tc %i\n"%(info['grid'][0],info['grid'][1],info['grid'][2],))
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header.append("size\tx %f\ty %f\tz %f\n"%(info['size'][0],info['size'][1],info['size'][2],))
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header.append("origin\tx %f\ty %f\tz %f\n"%(info['origin'][0],info['origin'][1],info['origin'][2],))
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@ -2,7 +2,11 @@
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# -*- coding: UTF-8 no BOM -*-
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import os,sys,math,string,numpy
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from optparse import OptionParser, Option
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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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class extendableOption(Option):
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@ -128,7 +132,7 @@ for file in files:
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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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header = ['$Id$\n']
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header = [scriptID+'\n']
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header.append("grid\ta %i\tb %i\tc %i\n"%(info['grid'][0],info['grid'][1],info['grid'][2],))
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header.append("size\tx %f\ty %f\tz %f\n"%(info['size'][0],info['size'][1],info['size'][2],))
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header.append("origin\tx %f\ty %f\tz %f\n"%(info['origin'][0],info['origin'][1],info['origin'][2],))
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@ -7,6 +7,9 @@ from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
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from scipy import ndimage
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from multiprocessing import Pool
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scriptID = '$Id$'
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scriptName = scriptID.split()[1]
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#--------------------------------------------------------------------------------------------------
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class extendedOption(Option):
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#--------------------------------------------------------------------------------------------------
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@ -129,7 +132,7 @@ Smoothens out interface roughness by simulated curvature flow.
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This is achieved by the diffusion of each initially sharply bounded grain volume within the periodic domain
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up to a given distance 'd' voxels.
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The final geometry is assembled by selecting at each voxel that grain index for which the concentration remains largest.
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""" + string.replace('$Id$','\n','\\n')
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""" + string.replace(scriptID,'\n','\\n')
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)
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parser.add_option('-d', '--distance', dest='d', type='int', \
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@ -169,7 +172,8 @@ else:
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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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if file['name'] != 'STDIN': file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
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else: file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
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theTable = damask.ASCIItable(file['input'],file['output'],labels=False)
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theTable.head_read()
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@ -271,7 +275,7 @@ for file in files:
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theTable.labels_clear()
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theTable.info_clear()
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theTable.info_append(extra_header+[
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"$Id$",
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scriptID,
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"grid\ta %i\tb %i\tc %i"%(info['grid'][0],info['grid'][1],info['grid'][2],),
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"size\tx %f\ty %f\tz %f"%(info['size'][0],info['size'][1],info['size'][2],),
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"origin\tx %f\ty %f\tz %f"%(info['origin'][0],info['origin'][1],info['origin'][2],),
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@ -4,6 +4,9 @@
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import os,sys,string,re,math,numpy
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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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class extendedOption(Option):
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#--------------------------------------------------------------------------------------------------
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@ -42,7 +45,7 @@ mappings = {
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parser = OptionParser(option_class=extendedOption, usage='%prog options [file[s]]', description = """
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Offset microstructure index for points which see a microstructure different from themselves within a given (cubic) vicinity,
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i.e. within the region close to a grain/phase boundary.
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""" + string.replace('$Id$','\n','\\n')
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""" + string.replace(scriptID,'\n','\\n')
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)
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parser.add_option('-v', '--vicinity', dest='vicinity', type='int', \
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@ -78,7 +81,8 @@ else:
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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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if file['name'] != 'STDIN': file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
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else: file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
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firstline = file['input'].readline()
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m = re.search('(\d+)\s*head', firstline.lower())
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@ -105,7 +109,7 @@ for file in files:
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}
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new_header = []
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new_header.append('$Id$\n')
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new_header.append(scriptID+'\n')
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for header in headers:
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headitems = map(str.lower,header.split())
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if headitems[0] == 'resolution': headitems[0] = 'grid'
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@ -10,6 +10,9 @@ that are written during the first run of the model.
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import sys,os,re
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from optparse import OptionParser
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scriptID = '$Id$'
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scriptName = scriptID.split()[1]
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# -----------------------------
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def ParseOutputFormat(filename,what,me):
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# -----------------------------
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@ -98,6 +101,7 @@ me = { 'Homogenization': options.homog,
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for file in files:
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print '\033[1m'+scriptName+'\033[0m: '+file+'\n'
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if options.useFile != '':
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formatFile = os.path.splitext(options.useFile)[0]
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else:
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@ -4,6 +4,9 @@
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import sys,os,pwd,math,re,string,numpy, damask
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from optparse import OptionParser
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scriptID = '$Id$'
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scriptName = scriptID.split()[1]
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sys.path.append(damask.solver.Marc().libraryPath('../../'))
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try:
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@ -155,8 +158,7 @@ def servoLink():
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#--------------------------------------------------------------------------------------------------
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parser = OptionParser(usage='%prog [options]', description = """
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Set up servo linking to achieve periodic boundary conditions for a regular hexahedral mesh presently opened in MSC.Mentat
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""" + string.replace('$Id$','\n','\\n')
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""" + string.replace(scriptID,'\n','\\n')
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)
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parser.add_option("-p", "--port", type="int",\
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@ -171,6 +173,7 @@ parser.set_defaults(verbose = False)
|
|||
(options, args) = parser.parse_args()
|
||||
|
||||
outputLocals = {}
|
||||
print '\033[1m'+scriptName+'\033[0m\n'
|
||||
print 'waiting to connect...'
|
||||
py_connect('',options.port)
|
||||
print 'connected...'
|
||||
|
|
|
|||
|
|
@ -4,6 +4,9 @@
|
|||
import os, sys, math, re, threading, time, string, damask
|
||||
from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
|
||||
|
||||
scriptID = '$Id$'
|
||||
scriptName = scriptID.split()[1]
|
||||
|
||||
#-------------------------------------------------------------------------------------------------
|
||||
def outMentat(cmd,locals):
|
||||
#-------------------------------------------------------------------------------------------------
|
||||
|
|
@ -231,8 +234,7 @@ Generate FE hexahedral mesh from spectral description file.
|
|||
Acceptable formats are
|
||||
geom: header plus list of grain numbers or
|
||||
spectral: phi1,Phi,phi2,x,y,z,id,phase.
|
||||
|
||||
""" + string.replace('$Id$','\n','\\n')
|
||||
""" + string.replace(scriptID,'\n','\\n')
|
||||
)
|
||||
parser.add_option("-p", "--port", type="int",\
|
||||
dest="port",\
|
||||
|
|
@ -243,7 +245,6 @@ parser.add_option("-g", "--geom", action="store_const", const="geom",\
|
|||
parser.add_option("-s", "--spectral", action="store_const", const="spectral",\
|
||||
dest="filetype",\
|
||||
help="file has 'spectral' format (VPSC Lebensohn)")
|
||||
|
||||
parser.add_option("--homogenization", type="int",\
|
||||
dest="homogenization",\
|
||||
help="homogenization index from material.config (only required for geom file type)")
|
||||
|
|
@ -270,6 +271,7 @@ file = open(args[0])
|
|||
content = file.readlines()
|
||||
file.close()
|
||||
|
||||
print '\033[1m'+scriptName+'\033[0m\n'
|
||||
if options.filetype not in ['spectral','geom']:
|
||||
options.filetype = os.path.splitext(args[0])[1][1:]
|
||||
|
||||
|
|
|
|||
|
|
@ -4,6 +4,9 @@
|
|||
import sys,os,math,re,string, damask
|
||||
from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
|
||||
|
||||
scriptID = '$Id$'
|
||||
scriptName = scriptID.split()[1]
|
||||
|
||||
|
||||
try: # check for Python Image Lib
|
||||
import Image,ImageDraw
|
||||
|
|
@ -784,8 +787,7 @@ def fftbuild(rcData,height,xframe,yframe,resolution,extrusion): # bui
|
|||
parser = OptionParser(option_class=extendedOption, usage='%prog [options] datafile[s]', description = """
|
||||
Produce image, spectral geometry description, and (auto) Mentat procedure from TSL/OIM
|
||||
reconstructed boundary file
|
||||
|
||||
""" + string.replace('$Id$','\n','\\n')
|
||||
""" + string.replace(scriptID,'\n','\\n')
|
||||
)
|
||||
|
||||
parser.add_option("-o", "--output", action='extend', dest='output', type='string', \
|
||||
|
|
@ -855,6 +857,7 @@ parser.set_defaults(twoD = False)
|
|||
|
||||
(options, args) = parser.parse_args()
|
||||
|
||||
print '\033[1m'+scriptName+'\033[0m\n'
|
||||
if not len(args):
|
||||
parser.error('no boundary file specified')
|
||||
|
||||
|
|
|
|||
|
|
@ -4,6 +4,9 @@
|
|||
import os,sys,string,re,math,numpy,random
|
||||
from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
|
||||
|
||||
scriptID = '$Id$'
|
||||
scriptName = scriptID.split()[1]
|
||||
|
||||
#------------------------------------------------------------------------------------------------
|
||||
class extendedOption(Option):
|
||||
#------------------------------------------------------------------------------------------------
|
||||
|
|
@ -37,7 +40,7 @@ mappings = {
|
|||
parser = OptionParser(option_class=extendedOption, usage='%prog [options]', description = """
|
||||
Distribute given number of points randomly within the three-dimensional cube [0.0,0.0,0.0]--[1.0,1.0,1.0].
|
||||
Reports positions with random crystal orientations in seeds file format to STDOUT.
|
||||
""" + string.replace('$Id$','\n','\\n')
|
||||
""" + string.replace(scriptID,'\n','\\n')
|
||||
)
|
||||
|
||||
parser.add_option('-N', dest='N', type='int', \
|
||||
|
|
@ -78,7 +81,7 @@ seeds[2,:]=(numpy.mod(seedpoint//(options.grid[1]*options.grid[0]),options.grid[
|
|||
+numpy.random.random())/options.grid[2]
|
||||
|
||||
print "5\theader"
|
||||
print "$Id$"
|
||||
print scriptID
|
||||
print "grid\ta %i\tb %i\tc %i"%(options.grid[0],options.grid[1],options.grid[2],)
|
||||
print "microstructures\t%i"%options.N
|
||||
print "randomSeed\t%i"%(options.randomSeed)
|
||||
|
|
|
|||
Loading…
Reference in New Issue