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DAMASK_EICMD
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fixed origin bug in VTK; VTK can be float; size defaults to 1 as longest dimension

This commit is contained in:
Philip Eisenlohr 2019-06-03 13:29:30 -04:00
parent 615ff4ed06
commit dff690611e
1 changed files with 18 additions and 14 deletions
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32
python/damask/geom.py
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@ -14,9 +14,9 @@ class Geom():
def __init__(self,microstructure,size,origin=[0.0,0.0,0.0],homogenization=1,comments=[]): def __init__(self,microstructure,size,origin=[0.0,0.0,0.0],homogenization=1,comments=[]):
"""New geometry definition from array of microstructures and size""" """New geometry definition from array of microstructures and size"""
self.set_microstructure(microstructure)
self.set_size(size) self.set_size(size)
self.set_origin(origin) self.set_origin(origin)
self.set_microstructure(microstructure)
self.set_homogenization(homogenization) self.set_homogenization(homogenization)
self.set_comments(comments) self.set_comments(comments)
@ -26,7 +26,7 @@ class Geom():
return util.srepr([ return util.srepr([
'grid a b c: {}'.format(' x '.join(map(str,self.get_grid ()))), 'grid a b c: {}'.format(' x '.join(map(str,self.get_grid ()))),
'size x y z: {}'.format(' x '.join(map(str,self.get_size ()))), 'size x y z: {}'.format(' x '.join(map(str,self.get_size ()))),
'origin x y z: {}'.format(' x '.join(map(str,self.get_origin()))), 'origin x y z: {}'.format(' '.join(map(str,self.get_origin()))),
'homogenization: {}'.format(self.get_homogenization()), 'homogenization: {}'.format(self.get_homogenization()),
'# microstructures: {}'.format(len(np.unique(self.microstructure))), '# microstructures: {}'.format(len(np.unique(self.microstructure))),
'max microstructure: {}'.format(np.nanmax(self.microstructure)), 'max microstructure: {}'.format(np.nanmax(self.microstructure)),
@ -57,10 +57,10 @@ class Geom():
message[-1] = util.delete(message[-1]) message[-1] = util.delete(message[-1])
message.append('size x y z: {}'.format(' x '.join(map(str,self.get_size())))) message.append('size x y z: {}'.format(' x '.join(map(str,self.get_size()))))
message.append('origin x y z: {}'.format(' x '.join(map(str,origin_old)))) message.append('origin x y z: {}'.format(' '.join(map(str,origin_old))))
if np.any(origin_old != self.get_origin()): if np.any(origin_old != self.get_origin()):
message[-1] = util.delete(message[-1]) message[-1] = util.delete(message[-1])
message.append('origin x y z: {}'.format(' x '.join(map(str,self.get_origin())))) message.append('origin x y z: {}'.format(' '.join(map(str,self.get_origin()))))
message.append('homogenization: {}'.format(self.get_homogenization())) message.append('homogenization: {}'.format(self.get_homogenization()))
@ -93,7 +93,10 @@ class Geom():
self.microstructure = np.copy(microstructure) self.microstructure = np.copy(microstructure)
def set_size(self,size): def set_size(self,size):
if size is not None: if size is None:
grid = np.asarray(self.microstructure.shape)
self.size = grid/np.max(grid)
else:
if len(size) != 3 or any(np.array(size)<=0): if len(size) != 3 or any(np.array(size)<=0):
raise ValueError('Invalid size {}'.format(*size)) raise ValueError('Invalid size {}'.format(*size))
else: else:
@ -211,9 +214,9 @@ class Geom():
origin = self.get_origin() origin = self.get_origin()
coords = [ coords = [
np.linspace(0,size[0],grid[0]) - origin[0], np.linspace(0,size[0],grid[0]) + origin[0],
np.linspace(0,size[1],grid[1]) - origin[1], np.linspace(0,size[1],grid[1]) + origin[1],
np.linspace(0,size[2],grid[2]) - origin[2] np.linspace(0,size[2],grid[2]) + origin[2]
] ]
rGrid = vtk.vtkRectilinearGrid() rGrid = vtk.vtkRectilinearGrid()
@ -228,12 +231,17 @@ class Geom():
rGrid.SetYCoordinates(coordArray[1]) rGrid.SetYCoordinates(coordArray[1])
rGrid.SetZCoordinates(coordArray[2]) rGrid.SetZCoordinates(coordArray[2])
ms = numpy_support.numpy_to_vtk(num_array=self.microstructure.flatten(order='F'),array_type=vtk.VTK_INT) ms = numpy_support.numpy_to_vtk(num_array=self.microstructure.flatten(order='F'),
array_type=vtk.VTK_INT if self.microstructure.dtype == int else vtk.VTK_FLOAT)
ms.SetName('microstructure') ms.SetName('microstructure')
rGrid.GetCellData().AddArray(ms) rGrid.GetCellData().AddArray(ms)
if fname is not None: if fname is None:
writer = vtk.vtkDataSetWriter()
writer.SetHeader('damask.Geom '+version)
writer.WriteToOutputStringOn()
else:
writer = vtk.vtkXMLRectilinearGridWriter() writer = vtk.vtkXMLRectilinearGridWriter()
writer.SetCompressorTypeToZLib() writer.SetCompressorTypeToZLib()
writer.SetDataModeToBinary() writer.SetDataModeToBinary()
@ -246,10 +254,6 @@ class Geom():
else: else:
raise ValueError("unknown extension {}".format(ext)) raise ValueError("unknown extension {}".format(ext))
writer.SetFileName(name) writer.SetFileName(name)
else:
writer = vtk.vtkDataSetWriter()
writer.SetHeader('damask.Geom '+version)
writer.WriteToOutputStringOn()
writer.SetInputData(rGrid) writer.SetInputData(rGrid)
writer.Write() writer.Write()