not needed for python-based workflow
This commit is contained in:
Martin Diehl
parent
4b6388fbb2
commit
7ccf836379
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@ -1,147 +0,0 @@
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#!/usr/bin/env python3
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import os
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import argparse
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import re
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import h5py
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import numpy as np
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import vtk
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from vtk.util import numpy_support
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import damask
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scriptName = os.path.splitext(os.path.basename(__file__))[0]
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scriptID = ' '.join([scriptName,damask.version])
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# --------------------------------------------------------------------
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# MAIN
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# --------------------------------------------------------------------
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parser = argparse.ArgumentParser()
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#ToDo: We need to decide on a way of handling arguments of variable lentght
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#https://stackoverflow.com/questions/15459997/passing-integer-lists-to-python
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#parser.add_argument('--version', action='version', version='%(prog)s {}'.format(scriptID))
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parser.add_argument('filenames', nargs='+',
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help='DADF5 files')
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parser.add_argument('-d','--dir', dest='dir',default='postProc',metavar='string',
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help='name of subdirectory relative to the location of the DADF5 file to hold output')
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parser.add_argument('--mat', nargs='+',
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help='labels for materialpoint',dest='mat')
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parser.add_argument('--con', nargs='+',
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help='labels for constituent',dest='con')
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options = parser.parse_args()
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if options.mat is None: options.mat=[]
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if options.con is None: options.con=[]
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# --- loop over input files ------------------------------------------------------------------------
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for filename in options.filenames:
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results = damask.DADF5(filename)
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if results.structured: # for grid solvers use rectilinear grid
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grid = vtk.vtkRectilinearGrid()
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coordArray = [vtk.vtkDoubleArray(),
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vtk.vtkDoubleArray(),
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vtk.vtkDoubleArray(),
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]
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grid.SetDimensions(*(results.grid+1))
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for dim in [0,1,2]:
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for c in np.linspace(0,results.size[dim],1+results.grid[dim]):
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coordArray[dim].InsertNextValue(c)
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grid.SetXCoordinates(coordArray[0])
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grid.SetYCoordinates(coordArray[1])
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grid.SetZCoordinates(coordArray[2])
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else:
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nodes = vtk.vtkPoints()
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with h5py.File(filename) as f:
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nodes.SetData(numpy_support.numpy_to_vtk(f['/geometry/x_n'][()],deep=True))
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grid = vtk.vtkUnstructuredGrid()
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grid.SetPoints(nodes)
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grid.Allocate(f['/geometry/T_c'].shape[0])
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for i in f['/geometry/T_c']:
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grid.InsertNextCell(vtk.VTK_HEXAHEDRON,8,i-1)
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N_digits = int(np.floor(np.log10(int(results.increments[-1][3:]))))+1
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for i,inc in enumerate(results.iter_visible('increments')):
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print('Output step {}/{}'.format(i+1,len(results.increments)))
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vtk_data = []
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results.set_visible('materialpoints',False)
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results.set_visible('constituents', True)
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for label in options.con:
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for p in results.iter_visible('con_physics'):
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if p != 'generic':
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for c in results.iter_visible('constituents'):
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x = results.get_dataset_location(label)
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if len(x) == 0:
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continue
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array = results.read_dataset(x,0)
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shape = [array.shape[0],np.product(array.shape[1:])]
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vtk_data.append(numpy_support.numpy_to_vtk(num_array=array.reshape(shape),deep=True,array_type= vtk.VTK_DOUBLE))
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vtk_data[-1].SetName('1_'+x[0].split('/',1)[1])
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grid.GetCellData().AddArray(vtk_data[-1])
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else:
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x = results.get_dataset_location(label)
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if len(x) == 0:
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continue
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ph_name = re.compile(r'(?<=(constituent\/))(.*?)(?=(generic))') #looking for phase name in dataset name
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array = results.read_dataset(x,0)
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shape = [array.shape[0],np.product(array.shape[1:])]
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vtk_data.append(numpy_support.numpy_to_vtk(num_array=array.reshape(shape),deep=True,array_type= vtk.VTK_DOUBLE))
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dset_name = '1_' + re.sub(ph_name,r'',x[0].split('/',1)[1]) #removing phase name from generic dataset
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vtk_data[-1].SetName(dset_name)
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grid.GetCellData().AddArray(vtk_data[-1])
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results.set_visible('constituents', False)
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results.set_visible('materialpoints',True)
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for label in options.mat:
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for p in results.iter_visible('mat_physics'):
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if p != 'generic':
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for m in results.iter_visible('materialpoints'):
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x = results.get_dataset_location(label)
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if len(x) == 0:
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continue
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array = results.read_dataset(x,0)
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shape = [array.shape[0],np.product(array.shape[1:])]
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vtk_data.append(numpy_support.numpy_to_vtk(num_array=array.reshape(shape),deep=True,array_type= vtk.VTK_DOUBLE))
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vtk_data[-1].SetName('1_'+x[0].split('/',1)[1])
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grid.GetCellData().AddArray(vtk_data[-1])
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else:
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x = results.get_dataset_location(label)
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if len(x) == 0:
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continue
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array = results.read_dataset(x,0)
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shape = [array.shape[0],np.product(array.shape[1:])]
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vtk_data.append(numpy_support.numpy_to_vtk(num_array=array.reshape(shape),deep=True,array_type= vtk.VTK_DOUBLE))
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vtk_data[-1].SetName('1_'+x[0].split('/',1)[1])
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grid.GetCellData().AddArray(vtk_data[-1])
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writer = vtk.vtkXMLRectilinearGridWriter() if results.structured else \
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vtk.vtkXMLUnstructuredGridWriter()
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results.set_visible('constituents', False)
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results.set_visible('materialpoints',False)
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x = results.get_dataset_location('u_n')
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vtk_data.append(numpy_support.numpy_to_vtk(num_array=results.read_dataset(x,0),deep=True,array_type=vtk.VTK_DOUBLE))
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vtk_data[-1].SetName('u')
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grid.GetPointData().AddArray(vtk_data[-1])
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dirname = os.path.abspath(os.path.join(os.path.dirname(filename),options.dir))
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if not os.path.isdir(dirname):
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os.mkdir(dirname,0o755)
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file_out = '{}_inc{}.{}'.format(os.path.splitext(os.path.split(filename)[-1])[0],
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inc[3:].zfill(N_digits),
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writer.GetDefaultFileExtension())
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writer.SetCompressorTypeToZLib()
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writer.SetDataModeToBinary()
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writer.SetFileName(os.path.join(dirname,file_out))
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writer.SetInputData(grid)
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writer.Write()
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@ -1,127 +0,0 @@
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#!/usr/bin/env python3
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import os
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import argparse
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import re
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import numpy as np
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import vtk
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from vtk.util import numpy_support
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import damask
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scriptName = os.path.splitext(os.path.basename(__file__))[0]
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scriptID = ' '.join([scriptName,damask.version])
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# --------------------------------------------------------------------
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# MAIN
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# --------------------------------------------------------------------
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parser = argparse.ArgumentParser()
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#ToDo: We need to decide on a way of handling arguments of variable lentght
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#https://stackoverflow.com/questions/15459997/passing-integer-lists-to-python
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#parser.add_argument('--version', action='version', version='%(prog)s {}'.format(scriptID))
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parser.add_argument('filenames', nargs='+',
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help='DADF5 files')
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parser.add_argument('-d','--dir', dest='dir',default='postProc',metavar='string',
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help='name of subdirectory relative to the location of the DADF5 file to hold output')
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parser.add_argument('--mat', nargs='+',
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help='labels for materialpoint',dest='mat')
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parser.add_argument('--con', nargs='+',
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help='labels for constituent',dest='con')
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options = parser.parse_args()
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if options.mat is None: options.mat=[]
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if options.con is None: options.con=[]
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# --- loop over input files ------------------------------------------------------------------------
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for filename in options.filenames:
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results = damask.DADF5(filename)
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Points = vtk.vtkPoints()
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Vertices = vtk.vtkCellArray()
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for c in results.cell_coordinates():
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pointID = Points.InsertNextPoint(c)
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Vertices.InsertNextCell(1)
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Vertices.InsertCellPoint(pointID)
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Polydata = vtk.vtkPolyData()
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Polydata.SetPoints(Points)
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Polydata.SetVerts(Vertices)
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Polydata.Modified()
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N_digits = int(np.floor(np.log10(int(results.increments[-1][3:]))))+1
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for i,inc in enumerate(results.iter_visible('increments')):
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print('Output step {}/{}'.format(i+1,len(results.increments)))
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vtk_data = []
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results.set_visible('materialpoints',False)
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results.set_visible('constituents', True)
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for label in options.con:
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for p in results.iter_visible('con_physics'):
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if p != 'generic':
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for c in results.iter_visible('constituents'):
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x = results.get_dataset_location(label)
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if len(x) == 0:
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continue
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array = results.read_dataset(x,0)
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shape = [array.shape[0],np.product(array.shape[1:])]
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vtk_data.append(numpy_support.numpy_to_vtk(num_array=array.reshape(shape),deep=True,array_type= vtk.VTK_DOUBLE))
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vtk_data[-1].SetName('1_'+x[0].split('/',1)[1])
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Polydata.GetCellData().AddArray(vtk_data[-1])
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else:
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x = results.get_dataset_location(label)
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if len(x) == 0:
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continue
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ph_name = re.compile(r'(?<=(constituent\/))(.*?)(?=(generic))') #looking for phase name in dataset name
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array = results.read_dataset(x,0)
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shape = [array.shape[0],np.product(array.shape[1:])]
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vtk_data.append(numpy_support.numpy_to_vtk(num_array=array.reshape(shape),deep=True,array_type= vtk.VTK_DOUBLE))
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dset_name = '1_' + re.sub(ph_name,r'',x[0].split('/',1)[1]) #removing phase name from generic dataset
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vtk_data[-1].SetName(dset_name)
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Polydata.GetCellData().AddArray(vtk_data[-1])
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results.set_visible('constituents', False)
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results.set_visible('materialpoints',True)
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for label in options.mat:
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for p in results.iter_visible('mat_physics'):
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if p != 'generic':
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for m in results.iter_visible('materialpoints'):
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x = results.get_dataset_location(label)
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if len(x) == 0:
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continue
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array = results.read_dataset(x,0)
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shape = [array.shape[0],np.product(array.shape[1:])]
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vtk_data.append(numpy_support.numpy_to_vtk(num_array=array.reshape(shape),deep=True,array_type= vtk.VTK_DOUBLE))
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vtk_data[-1].SetName('1_'+x[0].split('/',1)[1])
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Polydata.GetCellData().AddArray(vtk_data[-1])
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else:
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x = results.get_dataset_location(label)
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if len(x) == 0:
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continue
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array = results.read_dataset(x,0)
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shape = [array.shape[0],np.product(array.shape[1:])]
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vtk_data.append(numpy_support.numpy_to_vtk(num_array=array.reshape(shape),deep=True,array_type= vtk.VTK_DOUBLE))
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vtk_data[-1].SetName('1_'+x[0].split('/',1)[1])
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Polydata.GetCellData().AddArray(vtk_data[-1])
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writer = vtk.vtkXMLPolyDataWriter()
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dirname = os.path.abspath(os.path.join(os.path.dirname(filename),options.dir))
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if not os.path.isdir(dirname):
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os.mkdir(dirname,0o755)
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file_out = '{}_inc{}.{}'.format(os.path.splitext(os.path.split(filename)[-1])[0],
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inc[3:].zfill(N_digits),
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writer.GetDefaultFileExtension())
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writer.SetCompressorTypeToZLib()
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writer.SetDataModeToBinary()
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writer.SetFileName(os.path.join(dirname,file_out))
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writer.SetInputData(Polydata)
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writer.Write()
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