DAMASK_EICMD/processing/post/addCalculation.py

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#!/usr/bin/env python
# -*- coding: UTF-8 no BOM -*-
import os,re,sys,math,string
import numpy as np
from optparse import OptionParser
import damask
scriptID = string.replace('$Id$','\n','\\n')
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scriptName = os.path.splitext(scriptID.split()[1])[0]
def unravel(item):
if hasattr(item,'__contains__'): return ' '.join(map(unravel,item))
else: return str(item)
# --------------------------------------------------------------------
# MAIN
# --------------------------------------------------------------------
parser = OptionParser(option_class=damask.extendableOption, usage='%prog options [file[s]]', description = """
Add column(s) with derived values according to user-defined arithmetic operation between column(s).
Column labels are tagged by '#label#' in formulas. Use ';' for ',' in functions.
Numpy is available as np.
Special variables: #_row_# -- row index
Examples: (1) magnitude of vector -- "np.linalg.norm(#vec#)" (2) rounded root of row number -- "round(math.sqrt(#_row_#);3)"
""", version = scriptID)
parser.add_option('-l','--label',
dest = 'labels',
action = 'extend', metavar = '<string LIST>',
help = '(list of) new column labels')
parser.add_option('-f','--formula',
dest = 'formulas',
action = 'extend', metavar = '<string LIST>',
help = '(list of) formulas corresponding to labels')
(options,filenames) = parser.parse_args()
if options.labels == None or options.formulas == None:
parser.error('no formulas and/or labels specified.')
if len(options.labels) != len(options.formulas):
parser.error('number of labels ({}) and formulas ({}) do not match.'.format(len(options.labels),len(options.formulas)))
for i in xrange(len(options.formulas)):
options.formulas[i] = options.formulas[i].replace(';',',')
# --- loop over input files -------------------------------------------------------------------------
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if filenames == []: filenames = [None]
for name in filenames:
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try:
table = damask.ASCIItable(name = name, buffered = False)
except:
continue
table.croak('\033[1m'+scriptName+'\033[0m'+(': '+name if name else ''))
# ------------------------------------------ read header -------------------------------------------
table.head_read()
# ------------------------------------------ build formulae ----------------------------------------
specials = { \
'_row_': 0,
}
evaluator = {}
brokenFormula = {}
for label,formula in zip(options.labels,options.formulas):
for column in re.findall(r'#(.+?)#',formula): # loop over column labels in formula
idx = table.label_index(column)
dim = table.label_dimension(column)
if column in specials:
replacement = 'specials["{}"]'.format(column)
elif dim == 1: # scalar input
replacement = 'float(table.data[{}])'.format(idx) # take float value of data column
elif dim > 1: # multidimensional input (vector, tensor, etc.)
replacement = 'np.array(table.data[{}:{}],dtype=float)'.format(idx,idx+dim) # use (flat) array representation
else:
table.croak('column {} not found...'.format(column))
brokenFormula[label] = True
break
formula = formula.replace('#'+column+'#',replacement)
if label not in brokenFormula:
evaluator[label] = formula
# ------------------------------------------ process data ------------------------------------------
firstLine = True
outputAlive = True
while outputAlive and table.data_read(): # read next data line of ASCII table
specials['_row_'] += 1 # count row
# ------------------------------------------ calculate one result to get length of labels ---------
if firstLine:
firstLine = False
labelDim = {}
for label in [x for x in options.labels if x not in set(brokenFormula)]:
labelDim[label] = np.size(eval(evaluator[label]))
if labelDim[label] == 0: brokenFormula[label] = True
# ------------------------------------------ assemble header ---------------------------------------
if label not in brokenFormula:
table.labels_append(['{}_{}'.format(i+1,label) for i in xrange(labelDim[label])] if labelDim[label] > 1
else label)
table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
table.head_write()
# ------------------------------------------ process data ------------------------------------------
for label in [x for x in options.labels if x not in set(brokenFormula)]:
table.data_append(unravel(eval(evaluator[label])))
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outputAlive = table.data_write() # output processed line
# ------------------------------------------ output finalization -----------------------------------
table.close() # close ASCII tables