From a1cfc85d74e56587648c699b087442be202fad88 Mon Sep 17 00:00:00 2001
From: Philip	Eisenlohr <eisenlohr@egr.msu.edu>
Date: Mon, 27 Jan 2014 14:10:29 +0000
Subject: [PATCH] produce VTK unstructured grid with voxels around all points
 given in an ASCIItable.

---
 processing/post/vtk_voxelcloud.py | 136 ++++++++++++++++++++++++++++++
 1 file changed, 136 insertions(+)
 create mode 100755 processing/post/vtk_voxelcloud.py

diff --git a/processing/post/vtk_voxelcloud.py b/processing/post/vtk_voxelcloud.py
new file mode 100755
index 000000000..db377f743
--- /dev/null
+++ b/processing/post/vtk_voxelcloud.py
@@ -0,0 +1,136 @@
+#!/usr/bin/env python
+
+import os,sys,string,re,numpy,vtk
+import damask
+from optparse import OptionParser, OptionGroup, Option, SUPPRESS_HELP
+
+scriptID = '$Id: vtk_pointcloud.py 2748 2013-11-26 20:24:40Z MPIE\p.eisenlohr $'
+scriptName = scriptID.split()[1]
+
+#--------------------------------------------------------------------------------------------------
+class extendedOption(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)
+
+
+parser = OptionParser(option_class=extendedOption, usage='%prog options [file[s]]', description = """
+Create hexahedral voxels around points in an ASCIItable.
+""" + string.replace(scriptID,'\n','\\n')
+)
+
+parser.add_option('-p', '--positions',   dest='pos', type='string',
+                  help = 'coordinate label')
+parser.add_option('-s', '--size',   dest='size', type='float', nargs=3,
+                  help = 'x,y,z size of voxel')
+
+parser.set_defaults(pos = 'pos')
+
+(options, filenames) = parser.parse_args()
+
+if options.size == None:
+  parser.error('no size sprecified.')
+
+datainfo = {                                                               # list of requested labels per datatype
+             'vector':     {'len':3,
+                            'label':[]},
+           }
+
+if options.pos != None:  datainfo['vector']['label'] += [options.pos]
+
+# ------------------------------------------ setup file handles ---------------------------------------  
+
+files = []
+for name in filenames:
+  if os.path.exists(name):
+    files.append({'name':name, 'input':open(name), 'output':os.path.splitext(name)[0]+'.vtu', 'croak':sys.stderr})
+
+#--- loop over input files ------------------------------------------------------------------------
+for file in files:
+  if file['name'] != 'STDIN': file['croak'].write('\033[1m'+scriptName+'\033[0m: '+file['name']+'\n')
+  else: file['croak'].write('\033[1m'+scriptName+'\033[0m\n')
+
+  table = damask.ASCIItable(file['input'],file['croak'],False)             # make unbuffered ASCII_table
+  table.head_read()                                                         # read ASCII header info
+
+# --------------- figure out columns to process
+  active = {}
+  column = {}
+  head = []
+
+  for datatype,info in datainfo.items():
+    for label in info['label']:
+      foundIt = False
+      for key in ['1_'+label,label]:
+        if key in table.labels:
+          foundIt = True
+          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
+      if not foundIt:
+        file['croak'].write('column %s not found...\n'%label)
+        break
+
+
+# ------------------------------------------ process data ---------------------------------------  
+
+  hexPoints = numpy.array([[-1,-1,-1],
+                           [ 1,-1,-1],
+                           [ 1, 1,-1],
+                           [-1, 1,-1],
+                           [-1,-1, 1],
+                           [ 1,-1, 1],
+                           [ 1, 1, 1],
+                           [-1, 1, 1],
+                          ])
+  Points = vtk.vtkPoints()
+  Hex = vtk.vtkHexahedron()
+  uGrid = vtk.vtkUnstructuredGrid()
+
+  table.data_readArray(range(column['vector'][options.pos],\
+                             column['vector'][options.pos]+datainfo['vector']['len']))
+
+  minD = numpy.array(options.size,dtype=float)
+#   for i in xrange(3):
+#     coords = numpy.unique(table.data[:,i])
+#     minD[i] = coords[-1]-coords[0]
+#     for j in xrange(len(coords)-1):
+#       d = coords[j+1]-coords[j]
+#       if d < minD[i]:
+#         minD[i] = d
+    
+  for p in table.data:
+    for i,h in enumerate(hexPoints):
+      id = Points.InsertNextPoint(p+h*minD/2.)
+      Hex.GetPointIds().SetId(i,id)
+
+    uGrid.InsertNextCell(Hex.GetCellType(), Hex.GetPointIds())
+
+  uGrid.SetPoints(Points)
+
+# ------------------------------------------ output result ---------------------------------------  
+
+  writer = vtk.vtkXMLUnstructuredGridWriter()
+  writer.SetDataModeToBinary()
+  writer.SetCompressorTypeToZLib()
+  writer.SetFileName(file['output'])
+  if vtk.VTK_MAJOR_VERSION <= 5:
+      writer.SetInput(uGrid)
+  else:
+      writer.SetInputData(uGrid)
+  writer.Write()
+
+  file['input'].close()                                                   # close input ASCII table