DAMASK_EICMD/processing/post/addPK2.py

#!/usr/bin/env python3

import os
import sys
from io import StringIO
from optparse import OptionParser

import damask


scriptName = os.path.splitext(os.path.basename(__file__))[0]
scriptID   = ' '.join([scriptName,damask.version])

# --------------------------------------------------------------------
#                                MAIN
# --------------------------------------------------------------------

parser = OptionParser(option_class=damask.extendableOption, usage='%prog options [ASCIItable(s)]', description = """
Add column(s) containing Second Piola--Kirchhoff stress based on given column(s) of deformation
gradient and first Piola--Kirchhoff stress.

""", version = scriptID)

parser.add_option('-f','--defgrad',
                  dest = 'defgrad',
                  type = 'string', metavar = 'string',
                  help = 'heading of columns containing deformation gradient [%default]')
parser.add_option('-p','--stress',
                  dest = 'stress',
                  type = 'string', metavar = 'string',
                  help = 'heading of columns containing first Piola--Kirchhoff stress [%default]')

parser.set_defaults(defgrad = 'f',
                    stress  = 'p',
                   )

(options,filenames) = parser.parse_args()
if filenames == []: filenames = [None]

for name in filenames:
    damask.util.report(scriptName,name)

    table = damask.Table.from_ASCII(StringIO(''.join(sys.stdin.read())) if name is None else name)

    table.add_array('S',
                    damask.mechanics.PK2(table.get_array(options.defgrad).reshape(-1,3,3),
                                         table.get_array(options.stress).reshape(-1,3,3)).reshape(-1,9),
                    scriptID+' '+' '.join(sys.argv[1:]))

    table.to_ASCII(sys.stdout if name is None else name)