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

View File

@ -21,49 +21,49 @@ Operates on periodic ordered three-dimensional data sets.
""", version = scriptID)
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',
help='heading of columns containing tensor field values [%default]')
help='column label of deformation gradient [%default]')
parser.set_defaults(coords = 'ipinitialcoord')
parser.set_defaults(defgrad = 'f' )
(options,filenames) = parser.parse_args()
datainfo = { # list of requested labels per datatype
'defgrad': {'len':9,
'label':[]},
}
# --- loop over input files -------------------------------------------------------------------------
if filenames == []:
filenames = ['STDIN']
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})
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')
#--- loop over input files -------------------------------------------------------------------------
for file in files:
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.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
# --------------- figure out columns to process ---------------------------------------------------
if table.label_dimension(options.coords) != 3:
file['croak'].write('no coordinate vector (1/2/3_%s) found...\n'%options.coords)
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 ---------------------------------------------------------
try:
locationCol = table.labels.index('1_%s'%options.coords) # columns containing location data
except ValueError:
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
colCoords = table.label_index(options.coords) # starting column of location data
colDefGrad = table.label_index(options.defgrad) # remember columns of requested data
coords = [{},{},{}]
while table.data_read(): # read next data line of ASCII table
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]),\
len(coords[1]),\
len(coords[2]),],'i') # grid is number of distinct coordinates found
@ -84,25 +84,20 @@ for file in files:
N = grid.prod()
# --------------- 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 ---------------------------------------
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()
# ------------------------------------------ read deformation gradient field -----------------------
table.data_rewind()
F = np.array([0.0 for i in xrange(N*9)]).reshape([3,3]+list(grid))
idx = 0
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
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 ---------------------------------
Favg = damask.core.math.tensorAvg(F)
@ -121,6 +116,5 @@ for file in files:
# ------------------------------------------ output result -----------------------------------------
outputAlive and table.output_flush() # just in case of buffered ASCII table
table.input_close() # close input ASCII table
table.output_close() # close output ASCII table
table.close() # close tables
os.rename(file['name']+'_tmp',file['name']) # overwrite old one with tmp new