added script to add deviatoric and hydrostatic part of a tensor to ASCII table

processing/post/addDeviator.py

@@ -0,0 +1,130 @@
+#!/usr/bin/env python
+
+import os,re,sys,math,string,damask
+from optparse import OptionParser, Option
+
+oneThird = 1.0/3.0
+# -----------------------------
+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 deviator(m):
+  sph = oneThird*(m[0]+m[4]+m[8])
+  m[0] = m[0] - sph
+  m[4] = m[4] - sph
+  m[8] = m[8] - sph
+  return  m
+
+
+# --------------------------------------------------------------------
+#                                MAIN
+# --------------------------------------------------------------------
+
+parser = OptionParser(option_class=extendableOption, usage='%prog options [file[s]]', description = """
+Add column(s) containing deviator of requested tensor column(s).
+
+""" + string.replace('$Id$','\n','\\n')
+)
+
+
+parser.add_option('-t','--tensor',      dest='tensor', action='extend', type='string', \
+                                        help='heading of columns containing tensor field values')
+parser.add_option('-s','--spherical',   dest='hydrostatic', action='store_true',\
+                                        help='also add sperical part of tensor (hydrostatic component, pressure)')
+parser.set_defaults(hydrostatic = False)
+parser.set_defaults(tensor = [])
+
+(options,filenames) = parser.parse_args()
+
+if len(options.tensor) == 0:
+  parser.error('no data column specified...')
+
+datainfo = {                                                               # list of requested labels per datatype
+             'tensor':     {'len':9,
+                            'label':[]},
+           }
+
+
+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:
+  if file['name'] != 'STDIN': print file['name']
+
+  table = damask.ASCIItable(file['input'],file['output'],False)             # make unbuffered ASCII_table
+  table.head_read()                                                         # read ASCII header info
+  table.info_append(string.replace('$Id$','\n','\\n') + \
+                    '\t' + ' '.join(sys.argv[1:]))
+
+  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 table.labels:
+        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] = table.labels.index(key)                   # remember columns of requested data
+        table.labels_append(['%i_dev(%s)'%(i+1,label) for i in xrange(9)])  # extend ASCII header with new labels
+        if(options.hydrostatic): table.labels_append('sph(%s)'%label)
+
+# ------------------------------------------ assemble header ---------------------------------------  
+
+  table.head_write()
+
+# ------------------------------------------ process data ---------------------------------------  
+
+  while table.data_read():                                                  # read next data line of ASCII table
+  
+    for datatype,labels in active.items():                                  # loop over vector,tensor
+      for label in labels:                                                  # loop over all deviators
+        myTensor = map(float,table.data[column[datatype][label]:
+                             column[datatype][label]+datainfo[datatype]['len']])
+        table.data_append(deviator(myTensor))
+        if(options.hydrostatic): table.data_append(oneThird*(myTensor[0]+myTensor[4]+myTensor[8]))
+
+    table.data_write()                                                      # output processed line
+
+# ------------------------------------------ output result ---------------------------------------  
+
+  table.output_flush()                                                      # just in case of buffered ASCII table
+
+  file['input'].close()                                                     # close input ASCII table
+  if file['name'] != 'STDIN':
+    file['output'].close                                                    # close output ASCII table
+    os.rename(file['name']+'_tmp',file['name'])                             # overwrite old one with tmp new

processing/setup/setup_processing.py

@@ -100,6 +100,7 @@ bin_link = { \
                 'addCauchy.py',
                 'addCalculation.py',
                 'addDeterminant.py',
+                'addDeviator.py',
                 'addDivergence.py',
                 'addCurl.py',
                 'addMises.py',