DAMASK_EICMD/processing/post/addIndexed.py

114 lines
4.4 KiB
Python
Executable File

#!/usr/bin/env python3
import os
import sys
from optparse import OptionParser
import numpy as np
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 data in column(s) of mapped ASCIItable selected from the row indexed by the value in a mapping column.
Row numbers start at 1.
""", version = scriptID)
parser.add_option('--index',
dest = 'index',
type = 'string', metavar = 'string',
help = 'column label containing row index')
parser.add_option('-o','--offset',
dest = 'offset',
type = 'int', metavar = 'int',
help = 'constant offset for index column value [%default]')
parser.add_option('-l','--label',
dest = 'label',
action = 'extend', metavar = '<string LIST>',
help = 'column label(s) to be appended')
parser.add_option('-a','--asciitable',
dest = 'asciitable',
type = 'string', metavar = 'string',
help = 'indexed ASCIItable')
parser.set_defaults(offset = 0,
)
(options,filenames) = parser.parse_args()
if options.label is None:
parser.error('no data columns specified.')
if options.index is None:
parser.error('no index column given.')
# ------------------------------------------ process indexed ASCIItable ---------------------------
if options.asciitable is not None and os.path.isfile(options.asciitable):
indexedTable = damask.ASCIItable(name = options.asciitable,
buffered = False,
readonly = True)
indexedTable.head_read() # read ASCII header info of indexed table
missing_labels = indexedTable.data_readArray(options.label)
indexedTable.close() # close input ASCII table
if len(missing_labels) > 0:
damask.util.croak('column{} {} not found...'.format('s' if len(missing_labels) > 1 else '',', '.join(missing_labels)))
else:
parser.error('no indexed ASCIItable given.')
# --- loop over input files -------------------------------------------------------------------------
if filenames == []: filenames = [None]
for name in filenames:
try: table = damask.ASCIItable(name = name,
buffered = False)
except: continue
damask.util.report(scriptName,name)
# ------------------------------------------ read header ------------------------------------------
table.head_read()
# ------------------------------------------ sanity checks ----------------------------------------
errors = []
indexColumn = table.label_index(options.index)
if indexColumn < 0: errors.append('index column {} not found.'.format(options.index))
if errors != []:
damask.util.croak(errors)
table.close(dismiss = True)
continue
# ------------------------------------------ assemble header --------------------------------------
table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
table.labels_append(indexedTable.labels(raw = True)) # extend ASCII header with new labels
table.head_write()
# ------------------------------------------ process data ------------------------------------------
outputAlive = True
while outputAlive and table.data_read(): # read next data line of ASCII table
try:
table.data_append(indexedTable.data[int(round(float(table.data[indexColumn])))+options.offset-1]) # add all mapped data types
except IndexError:
table.data_append(np.nan*np.ones_like(indexedTable.data[0]))
outputAlive = table.data_write() # output processed line
# ------------------------------------------ output finalization -----------------------------------
table.close() # close ASCII tables