DAMASK_EICMD/processing/post/addDeterminant

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#!/usr/bin/python
import os,re,sys,math,string
from optparse import OptionParser, Option
# -----------------------------
class extendableOption(Option):
# -----------------------------
# used for definition of new option parser action 'extend', which enables to take multiple option arguments
# taken from online tutorial http://docs.python.org/library/optparse.html
ACTIONS = Option.ACTIONS + ("extend",)
STORE_ACTIONS = Option.STORE_ACTIONS + ("extend",)
TYPED_ACTIONS = Option.TYPED_ACTIONS + ("extend",)
ALWAYS_TYPED_ACTIONS = Option.ALWAYS_TYPED_ACTIONS + ("extend",)
def take_action(self, action, dest, opt, value, values, parser):
if action == "extend":
lvalue = value.split(",")
values.ensure_value(dest, []).extend(lvalue)
else:
Option.take_action(self, action, dest, opt, value, values, parser)
def determinant(m):
return +m[0]*m[4]*m[8] \
+m[1]*m[5]*m[6] \
+m[2]*m[3]*m[7] \
-m[2]*m[4]*m[6] \
-m[1]*m[3]*m[8] \
-m[0]*m[5]*m[7] \
# --------------------------------------------------------------------
# MAIN
# --------------------------------------------------------------------
parser = OptionParser(option_class=extendableOption, usage='%prog options [file[s]]', description = """
Add column(s) containing determinant of requested tensor column(s).
$Id: addDeterminant 278 2011-06-15 17:57:42Z MPIE\p.eisenlohr $
""")
parser.add_option('-m','--memory', dest='memory', action='store_true', \
help='load complete file into memory [%default]')
parser.add_option('-t','--tensor', dest='tensor', action='extend', type='string', \
help='heading of columns containing tensor field values')
parser.set_defaults(memory = False)
parser.set_defaults(vector = [])
parser.set_defaults(tensor = [])
(options,filenames) = parser.parse_args()
if len(options.vector) + len(options.tensor) == 0:
parser.error('no data column specified...')
datainfo = { # list of requested labels per datatype
'vector': {'len':3,
'label':[]},
'tensor': {'len':9,
'label':[]},
}
if options.vector != None: datainfo['vector']['label'] += options.vector
if options.tensor != None: datainfo['tensor']['label'] += options.tensor
# ------------------------------------------ setup file handles ---------------------------------------
files = []
if filenames == []:
files.append({'name':'STDIN', 'input':sys.stdin, 'output':sys.stdout})
else:
for name in filenames:
if os.path.exists(name):
files.append({'name':name, 'input':open(name), 'output':open(name+'_tmp','w')})
# ------------------------------------------ loop over input files ---------------------------------------
for file in files:
print file['name']
# get labels by either read the first row, or - if keyword header is present - the last line of the header
firstline = file['input'].readline()
m = re.search('(\d+)\s*head', firstline.lower())
if m:
headerlines = int(m.group(1))
passOn = [file['input'].readline() for i in range(1,headerlines)]
headers = file['input'].readline().split()
else:
headerlines = 1
passOn = []
headers = firstline.split()
if options.memory:
data = file['input'].readlines()
else:
data = []
for i,l in enumerate(headers):
if l.startswith('1_'):
if re.match('\d+_',l[2:]) or i == len(headers)-1 or not headers[i+1].endswith(l[2:]):
headers[i] = l[2:]
active = {}
column = {}
head = []
for datatype,info in datainfo.items():
for label in info['label']:
key = {True :'1_%s',
False:'%s' }[info['len']>1]%label
if key not in headers:
sys.stderr.write('column %s not found...\n'%key)
else:
if datatype not in active: active[datatype] = []
if datatype not in column: column[datatype] = {}
active[datatype].append(label)
column[datatype][label] = headers.index(key)
head.append('det(%s)'%label)
# ------------------------------------------ assemble header ---------------------------------------
output = '%i\theader'%(headerlines+1) + '\n' + \
''.join(passOn) + \
string.replace('$Id: addDeterminant 278 2011-06-15 17:57:42Z MPIE\p.eisenlohr $','\n','\\n')+ '\t' + \
' '.join(sys.argv[1:]) + '\n' + \
'\t'.join(headers + head) + '\n' # build extended header
if not options.memory:
file['output'].write(output)
output = ''
# ------------------------------------------ read file ---------------------------------------
for line in {True : data,
False : file['input']}[options.memory]:
items = line.split()[:len(headers)]
if len(items) < len(headers):
continue
output += '\t'.join(items)
for datatype,labels in active.items():
for label in labels:
theValue = determinant(map(float,items[column[datatype][label]:
column[datatype][label]+datainfo[datatype]['len']]))
output += '\t%f'%theValue
output += '\n'
if not options.memory:
file['output'].write(output)
output = ''
file['input'].close()
# ------------------------------------------ output result ---------------------------------------
if options.memory:
file['output'].write(output)
if file['name'] != 'STDIN':
file['output'].close
os.rename(file['name']+'_tmp',file['name'])