simplified processing of ASCIItables by utilizing the improved class methods.
modernized file looping.
This commit is contained in:
Philip Eisenlohr
parent
0e48fb8fc7
commit
5cc7b60a88
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@ -37,109 +37,82 @@ parser.add_option('-c', dest='c', metavar='string',
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help = 'crystal frame c vector label')
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parser.add_option('-q', '--quaternion', dest='quaternion', metavar='string',
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help = 'quaternion label')
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parser.set_defaults(pole = (0.0,0.0,1.0))
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parser.set_defaults(symmetry = 'cubic')
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parser.set_defaults(degrees = False)
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parser.set_defaults(pole = (0.0,0.0,1.0),
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symmetry = 'cubic',
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degrees = False,
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)
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(options, filenames) = parser.parse_args()
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datainfo = { # list of requested labels per datatype
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'tensor': {'len':9,
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'label':[]},
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'vector': {'len':3,
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'label':[]},
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'quaternion': {'len':4,
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'label':[]},
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}
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input = []
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if options.eulers != None:
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datainfo['vector']['label'] += [options.eulers]
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input += ['eulers']
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if options.a != None and \
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input = [options.eulers != None,
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options.a != None and \
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options.b != None and \
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options.c != None:
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datainfo['vector']['label'] += [options.a,options.b,options.c]
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input += ['frame']
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if options.matrix != None:
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datainfo['tensor']['label'] += [options.matrix]
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input += ['matrix']
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if options.quaternion != None:
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datainfo['quaternion']['label'] += [options.quaternion]
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input += ['quaternion']
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options.c != None,
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options.matrix != None,
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options.quaternion != None,
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]
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if len(input) != 1: parser.error('needs exactly one input format...')
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input = input[0]
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if np.sum(input) != 1: parser.error('needs exactly one input format...')
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(label,dim,inputtype) = [(options.eulers,3,'eulers'),
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([options.a,options.b,options.c],[3,3,3],'frame'),
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(options.matrix,9,'matrix'),
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(options.quaternion,4,'quaternion'),
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][np.where(input)[0][0]] # select input label that was requested
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toRadians = math.pi/180.0 if options.degrees else 1.0 # rescale degrees to radians
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pole = np.array(options.pole)
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pole /= np.linalg.norm(pole)
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# ------------------------------------------ setup file handles ------------------------------------
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files = []
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# --- loop over input files -------------------------------------------------------------------------
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if filenames == []:
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files.append({'name':'STDIN', 'input':sys.stdin, 'output':sys.stdout, 'croak':sys.stderr})
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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(name+'_tmp','w'), 'croak':sys.stderr})
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filenames = ['STDIN']
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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('\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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table = damask.ASCIItable(file['input'],file['output'],False) # make unbuffered ASCII_table
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table.head_read() # read ASCII header info
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table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
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column = {}
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missingColumns = False
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for datatype,info in datainfo.items():
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for label in info['label']:
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key = list(set([label, '1_'+label]) & set(table.labels))
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if key == []:
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file['croak'].write('column %s not found...\n'%label)
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missingColumns = True # break if label not found
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for name in filenames:
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if name == 'STDIN':
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file = {'name':'STDIN', 'input':sys.stdin, 'output':sys.stdout, 'croak':sys.stderr}
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file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
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else:
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column[label] = table.labels.index(key[0]) # remember columns of requested data
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if not os.path.exists(name): continue
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file = {'name':name, 'input':open(name), 'output':open(name+'_tmp','w'), 'croak':sys.stderr}
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file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
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if missingColumns:
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table = damask.ASCIItable(file['input'],file['output'],buffered=False) # make unbuffered ASCII_table
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table.head_read() # read ASCII header info
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if not np.all(table.label_dimension(label) == dim):
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file['croak'].write('input %s has wrong dimension %i...\n'%(label,dim))
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table.close(dismiss = True) # close ASCIItable and remove empty file
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continue
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column = table.label_index(label)
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# ------------------------------------------ assemble header ---------------------------------------
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table.labels_append(['%i_IPF_%g%g%g'%(i+1,options.pole[0],options.pole[1],options.pole[2]) for i in xrange(3)])
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table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
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table.labels_append(['%i_IPF_%g%g%g_%s'%(i+1,options.pole[0],options.pole[1],options.pole[2],options.symmetry.lower()) for i in xrange(3)])
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table.head_write()
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# ------------------------------------------ process data ------------------------------------------
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outputAlive = True
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while outputAlive and table.data_read(): # read next data line of ASCII table
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if input == 'eulers':
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if inputtype == 'eulers':
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o = damask.Orientation(Eulers=toRadians*\
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np.array(map(float,table.data[column[options.eulers]:\
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column[options.eulers]+datainfo['vector']['len']])),
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np.array(map(float,table.data[column:column+3])),
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symmetry=options.symmetry).reduced()
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elif input == 'matrix':
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elif inputtype == 'matrix':
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o = damask.Orientation(matrix=\
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np.array([map(float,table.data[column[options.matrix]:\
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column[options.matrix]+datainfo['tensor']['len']])]).reshape(np.sqrt(datainfo['tensor']['len']),
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np.sqrt(datainfo['tensor']['len'])).transpose(),
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np.array([map(float,table.data[column:column+9])]).reshape(3,3).transpose(),
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symmetry=options.symmetry).reduced()
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elif input == 'frame':
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elif inputtype == 'frame':
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o = damask.Orientation(matrix=\
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np.array([map(float,table.data[column[options.a]:\
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column[options.a]+datainfo['vector']['len']] + \
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table.data[column[options.b]:\
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column[options.b]+datainfo['vector']['len']] + \
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table.data[column[options.c]:\
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column[options.c]+datainfo['vector']['len']]
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np.array([map(float,table.data[column[0]:column[0]+3] + \
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table.data[column[1]:column[1]+3] + \
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table.data[column[2]:column[2]+3]
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)]).reshape(3,3),
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symmetry=options.symmetry).reduced()
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elif input == 'quaternion':
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elif inputtype == 'quaternion':
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o = damask.Orientation(quaternion=\
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np.array(map(float,table.data[column[options.quaternion]:\
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column[options.quaternion]+datainfo['quaternion']['len']])),
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np.array(map(float,table.data[column:column+4])),
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symmetry=options.symmetry).reduced()
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table.data_append(o.IPFcolor(pole))
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