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DAMASK_EICMD
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simplifications by adopting functionality provided by new asciitable class methods.

This commit is contained in:
Philip Eisenlohr 2015-06-08 05:07:14 +00:00
parent 48f31f13a6
commit e243632eb5
1 changed files with 31 additions and 37 deletions
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66
processing/post/addDeformedConfiguration.py
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@ -21,49 +21,49 @@ Operates on periodic ordered three-dimensional data sets.
""", version = scriptID) """, version = scriptID)
parser.add_option('-c','--coordinates', dest='coords', metavar='string', parser.add_option('-c','--coordinates', dest='coords', metavar='string',
help='column heading for coordinates [%default]') help='column label of coordinates [%default]')
parser.add_option('-f','--defgrad', dest='defgrad', metavar='string', parser.add_option('-f','--defgrad', dest='defgrad', metavar='string',
help='heading of columns containing tensor field values [%default]') help='column label of deformation gradient [%default]')
parser.set_defaults(coords = 'ipinitialcoord') parser.set_defaults(coords = 'ipinitialcoord')
parser.set_defaults(defgrad = 'f' ) parser.set_defaults(defgrad = 'f' )
(options,filenames) = parser.parse_args() (options,filenames) = parser.parse_args()
datainfo = { # list of requested labels per datatype
'defgrad': {'len':9,
'label':[]},
}
datainfo['defgrad']['label'].append(options.defgrad)
# ------------------------------------------ setup file handles ------------------------------------
files = []
for name in filenames:
if os.path.exists(name):
files.append({'name':name, 'input':open(name), 'output':open(name+'_tmp','w'), 'croak':sys.stderr})
# --- loop over input files ------------------------------------------------------------------------- # --- loop over input files -------------------------------------------------------------------------
for file in 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') file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
table = damask.ASCIItable(file['input'],file['output'],False) # make unbuffered ASCII_table table = damask.ASCIItable(file['input'],file['output'],buffered=False) # make unbuffered ASCII_table
table.head_read() # read ASCII header info table.head_read() # read ASCII header info
table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:])) table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
# --------------- figure out size and grid --------------------------------------------------------- # --------------- figure out columns to process ---------------------------------------------------
try:
locationCol = table.labels.index('1_%s'%options.coords) # columns containing location data if table.label_dimension(options.coords) != 3:
except ValueError: file['croak'].write('no coordinate vector (1/2/3_%s) found...\n'%options.coords)
try:
locationCol = table.labels.index('%s.x'%options.coords) # columns containing location data (legacy naming scheme)
except ValueError:
file['croak'].write('no coordinate data (1_%s/%s.x) found...\n'%(options.coords,options.coords))
continue continue
if table.label_dimension(options.defgrad) != 9:
file['croak'].write('no deformation gradient tensor (1..9_%s) found...\n'%options.defgrad)
continue
# --------------- figure out size and grid ---------------------------------------------------------
colCoords = table.label_index(options.coords) # starting column of location data
colDefGrad = table.label_index(options.defgrad) # remember columns of requested data
coords = [{},{},{}] coords = [{},{},{}]
while table.data_read(): # read next data line of ASCII table while table.data_read(): # read next data line of ASCII table
for j in xrange(3): for j in xrange(3):
coords[j][str(table.data[locationCol+j])] = True # remember coordinate along x,y,z coords[j][str(table.data[colCoords+j])] = True # remember coordinate along x,y,z
grid = np.array([len(coords[0]),\ grid = np.array([len(coords[0]),\
len(coords[1]),\ len(coords[1]),\
len(coords[2]),],'i') # grid is number of distinct coordinates found len(coords[2]),],'i') # grid is number of distinct coordinates found
@ -84,15 +84,10 @@ for file in files:
N = grid.prod() N = grid.prod()
# --------------- figure out columns to process --------------------------------------------------- # --------------- figure out columns to process ---------------------------------------------------
key = '1_%s'%datainfo['defgrad']['label'][0]
if key not in table.labels:
file['croak'].write('column %s not found...\n'%key)
continue
else:
column = table.labels.index(key) # remember columns of requested data
# ------------------------------------------ assemble header --------------------------------------- # ------------------------------------------ assemble header ---------------------------------------
table.labels_append(['%s_coords'%(coord+1) for coord in xrange(3)]) # extend ASCII header with new labels table.labels_append(['%s_%s%s'%(coord+1,options.defgrad,options.coords) for coord in xrange(3)]) # extend ASCII header with new labels
table.head_write() table.head_write()
# ------------------------------------------ read deformation gradient field ----------------------- # ------------------------------------------ read deformation gradient field -----------------------
@ -102,7 +97,7 @@ for file in files:
while table.data_read(): while table.data_read():
(x,y,z) = damask.util.gridLocation(idx,grid) # figure out (x,y,z) position from line count (x,y,z) = damask.util.gridLocation(idx,grid) # figure out (x,y,z) position from line count
idx += 1 idx += 1
F[0:3,0:3,x,y,z] = np.array(map(float,table.data[column:column+9]),'d').reshape(3,3) F[0:3,0:3,x,y,z] = np.array(map(float,table.data[colDefGrad:colDefGrad+9]),'d').reshape(3,3)
# ------------------------------------------ calculate coordinates --------------------------------- # ------------------------------------------ calculate coordinates ---------------------------------
Favg = damask.core.math.tensorAvg(F) Favg = damask.core.math.tensorAvg(F)
@ -121,6 +116,5 @@ for file in files:
# ------------------------------------------ output result ----------------------------------------- # ------------------------------------------ output result -----------------------------------------
outputAlive and table.output_flush() # just in case of buffered ASCII table outputAlive and table.output_flush() # just in case of buffered ASCII table
table.input_close() # close input ASCII table table.close() # close tables
table.output_close() # close output ASCII table
os.rename(file['name']+'_tmp',file['name']) # overwrite old one with tmp new os.rename(file['name']+'_tmp',file['name']) # overwrite old one with tmp new