DAMASK_EICMD/processing/post/addAPS34IDEstrainCoords.py

97 lines
4.3 KiB
Python
Executable File

#!/usr/bin/env python2.7
# -*- coding: UTF-8 no BOM -*-
import os,sys
import numpy as np
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 [file[s]]', description = """
Transform X,Y,Z,F APS BeamLine 34 coordinates to x,y,z APS strain coordinates.
""", version = scriptID)
parser.add_option('-f','--frame', dest='frame', nargs=4, type='string', metavar='string string string string',
help='APS X,Y,Z coords, and depth F')
parser.set_defaults(frame = None)
(options,filenames) = parser.parse_args()
if options.frame is None:
parser.error('no data column specified...')
datainfo = {'len':3,
'label':[]
}
datainfo['label'] += options.frame
# --- loop over input files -------------------------------------------------------------------------
if filenames == []:
filenames = ['STDIN']
for name in filenames:
if name == 'STDIN':
file = {'name':'STDIN', 'input':sys.stdin, 'output':sys.stdout, 'croak':sys.stderr}
file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
else:
if not os.path.exists(name): continue
file = {'name':name, 'input':open(name), 'output':open(name+'_tmp','w'), 'croak':sys.stderr}
file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
table = damask.ASCIItable(file['input'],file['output'],buffered=False) # make unbuffered ASCII_table
table.head_read() # read ASCII header info
table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
# --------------- figure out columns to process ---------------------------------------------------
active = []
column = {}
columnMissing = False
for label in datainfo['label']:
key = label
if key in table.labels(raw = True):
active.append(label)
column[label] = table.labels.index(key) # remember columns of requested data
else:
file['croak'].write('column %s not found...\n'%label)
columnMissing = True
if columnMissing: continue
# ------------------------------------------ assemble header ---------------------------------------
table.labels_append(['%i_coord'%(i+1) for i in xrange(3)]) # extend ASCII header with new labels
table.head_write()
# ------------------------------------------ process data ------------------------------------------
theta=-0.75*np.pi
RotMat2TSL=np.array([[1., 0., 0.],
[0., np.cos(theta), np.sin(theta)], # Orientation to account for -135 deg
[0., -np.sin(theta), np.cos(theta)]]) # rotation for TSL convention
vec = np.zeros(4)
outputAlive = True
while outputAlive and table.data_read(): # read next data line of ASCII table
for i,label in enumerate(active):
vec[i] = table.data[column[label]]
table.data_append(np.dot(RotMat2TSL,np.array([-vec[0], -vec[1],-vec[2]+vec[3]])))
outputAlive = table.data_write() # output processed line
# ------------------------------------------ output result -----------------------------------------
outputAlive and table.output_flush() # just in case of buffered ASCII table
table.input_close() # close input ASCII table (works for stdin)
table.output_close() # close output ASCII table (works for stdout)
if file['name'] != 'STDIN':
os.rename(file['name']+'_tmp',file['name']) # overwrite old one with tmp new