Ensuring regular spacing for grid
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4286fc3b82
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@ -8,6 +8,7 @@ import numpy as np
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import pandas as pd
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import pandas as pd
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import h5py
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import h5py
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from scipy import ndimage, spatial
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from scipy import ndimage, spatial
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from vtk.util.numpy_support import vtk_to_numpy as vtk_to_np
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from . import environment
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from . import environment
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from . import VTK
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from . import VTK
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@ -107,9 +108,9 @@ class Grid:
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@material.setter
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@material.setter
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def material(self,material):
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def material(self,material):
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if len(material.shape) != 3:
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if len(material.shape) != 3:
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raise ValueError(f'Invalid material shape {material.shape}.')
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raise ValueError(f'invalid material shape {material.shape}')
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elif material.dtype not in np.sctypes['float'] + np.sctypes['int']:
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elif material.dtype not in np.sctypes['float'] + np.sctypes['int']:
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raise TypeError(f'Invalid material data type {material.dtype}.')
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raise TypeError(f'invalid material data type {material.dtype}')
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else:
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else:
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self._material = np.copy(material)
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self._material = np.copy(material)
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@ -126,7 +127,7 @@ class Grid:
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@size.setter
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@size.setter
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def size(self,size):
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def size(self,size):
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if len(size) != 3 or any(np.array(size) <= 0):
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if len(size) != 3 or any(np.array(size) <= 0):
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raise ValueError(f'Invalid size {size}.')
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raise ValueError(f'invalid size {size}')
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else:
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else:
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self._size = np.array(size)
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self._size = np.array(size)
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@ -138,7 +139,7 @@ class Grid:
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@origin.setter
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@origin.setter
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def origin(self,origin):
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def origin(self,origin):
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if len(origin) != 3:
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if len(origin) != 3:
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raise ValueError(f'Invalid origin {origin}.')
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raise ValueError(f'invalid origin {origin}')
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else:
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else:
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self._origin = np.array(origin)
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self._origin = np.array(origin)
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@ -181,6 +182,10 @@ class Grid:
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cells = np.array(v.vtk_data.GetDimensions())-1
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cells = np.array(v.vtk_data.GetDimensions())-1
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bbox = np.array(v.vtk_data.GetBounds()).reshape(3,2).T
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bbox = np.array(v.vtk_data.GetBounds()).reshape(3,2).T
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for i,c in enumerate([v.vtk_data.GetXCoordinates(),v.vtk_data.GetYCoordinates(),v.vtk_data.GetZCoordinates()]):
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if not np.allclose(vtk_to_np(c),np.linspace(bbox[0][i],bbox[1][i],cells[i]+1)):
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raise ValueError('regular grid spacing violated')
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return Grid(material = v.get('material').reshape(cells,order='F'),
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return Grid(material = v.get('material').reshape(cells,order='F'),
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size = bbox[1] - bbox[0],
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size = bbox[1] - bbox[0],
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origin = bbox[0],
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origin = bbox[0],
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@ -214,7 +219,7 @@ class Grid:
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except ValueError:
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except ValueError:
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header_length,keyword = (-1, 'invalid')
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header_length,keyword = (-1, 'invalid')
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if not keyword.startswith('head') or header_length < 3:
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if not keyword.startswith('head') or header_length < 3:
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raise TypeError('Header length information missing or invalid')
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raise TypeError('header length information missing or invalid')
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comments = []
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comments = []
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content = f.readlines()
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content = f.readlines()
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@ -246,7 +251,7 @@ class Grid:
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i += len(items)
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i += len(items)
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if i != cells.prod():
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if i != cells.prod():
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raise TypeError(f'Invalid file: expected {cells.prod()} entries, found {i}')
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raise TypeError(f'invalid file: expected {cells.prod()} entries, found {i}')
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if not np.any(np.mod(material,1) != 0.0): # no float present
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if not np.any(np.mod(material,1) != 0.0): # no float present
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material = material.astype('int') - (1 if material.min() > 0 else 0)
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material = material.astype('int') - (1 if material.min() > 0 else 0)
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@ -631,7 +636,7 @@ class Grid:
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"""
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"""
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valid = ['x','y','z']
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valid = ['x','y','z']
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if not set(directions).issubset(valid):
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if not set(directions).issubset(valid):
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raise ValueError(f'Invalid direction {set(directions).difference(valid)} specified.')
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raise ValueError(f'invalid direction {set(directions).difference(valid)} specified')
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limits = [None,None] if reflect else [-2,0]
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limits = [None,None] if reflect else [-2,0]
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mat = self.material.copy()
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mat = self.material.copy()
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@ -663,7 +668,7 @@ class Grid:
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"""
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"""
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valid = ['x','y','z']
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valid = ['x','y','z']
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if not set(directions).issubset(valid):
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if not set(directions).issubset(valid):
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raise ValueError(f'Invalid direction {set(directions).difference(valid)} specified.')
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raise ValueError(f'invalid direction {set(directions).difference(valid)} specified')
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mat = np.flip(self.material, (valid.index(d) for d in directions if d in valid))
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mat = np.flip(self.material, (valid.index(d) for d in directions if d in valid))
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@ -916,7 +921,7 @@ class Grid:
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"""
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"""
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valid = ['x','y','z']
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valid = ['x','y','z']
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if not set(directions).issubset(valid):
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if not set(directions).issubset(valid):
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raise ValueError(f'Invalid direction {set(directions).difference(valid)} specified.')
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raise ValueError(f'invalid direction {set(directions).difference(valid)} specified')
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o = [[0, self.cells[0]+1, np.prod(self.cells[:2]+1)+self.cells[0]+1, np.prod(self.cells[:2]+1)],
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o = [[0, self.cells[0]+1, np.prod(self.cells[:2]+1)+self.cells[0]+1, np.prod(self.cells[:2]+1)],
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[0, np.prod(self.cells[:2]+1), np.prod(self.cells[:2]+1)+1, 1],
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[0, np.prod(self.cells[:2]+1), np.prod(self.cells[:2]+1)+1, 1],
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@ -1,5 +1,6 @@
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import pytest
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import pytest
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import numpy as np
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import numpy as np
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from vtk.util.numpy_support import numpy_to_vtk as np_to_vtk
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from damask import VTK
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from damask import VTK
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from damask import Grid
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from damask import Grid
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@ -57,13 +58,21 @@ class TestGrid:
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new = Grid.load(tmp_path/'default.vtr')
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new = Grid.load(tmp_path/'default.vtr')
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assert grid_equal(new,default)
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assert grid_equal(new,default)
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def test_invalid_vtr(self,tmp_path):
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def test_invalid_no_material(self,tmp_path):
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v = VTK.from_rectilinear_grid(np.random.randint(5,10,3)*2,np.random.random(3) + 1.0)
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v = VTK.from_rectilinear_grid(np.random.randint(5,10,3)*2,np.random.random(3) + 1.0)
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v.save(tmp_path/'no_materialpoint.vtr',parallel=False)
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v.save(tmp_path/'no_materialpoint.vtr',parallel=False)
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with pytest.raises(ValueError):
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with pytest.raises(ValueError):
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Grid.load(tmp_path/'no_materialpoint.vtr')
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Grid.load(tmp_path/'no_materialpoint.vtr')
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def test_invalid_material(self):
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def test_invalid_spacing(self,tmp_path,default):
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default.save(tmp_path/'spacing_ok.vtr')
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vtk = VTK.load(tmp_path/'spacing_ok.vtr')
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vtk.vtk_data.SetXCoordinates(np_to_vtk(np.sort(np.random.random(default.cells[0]))))
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vtk.save(tmp_path/'invalid_spacing.vtr',parallel=False)
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with pytest.raises(ValueError):
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Grid.load(tmp_path/'invalid_spacing.vtr')
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def test_invalid_material_type(self):
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with pytest.raises(TypeError):
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with pytest.raises(TypeError):
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Grid(np.zeros((3,3,3),dtype='complex'),np.ones(3))
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Grid(np.zeros((3,3,3),dtype='complex'),np.ones(3))
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