455 lines
19 KiB
Python
455 lines
19 KiB
Python
import pytest
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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 Grid
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from damask import Table
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from damask import Rotation
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from damask import util
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from damask import seeds
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from damask import grid_filters
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def grid_equal(a,b):
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return np.all(a.material == b.material) and \
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np.all(a.cells == b.cells) and \
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np.allclose(a.size, b.size) and \
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str(a.diff(b)) == str(b.diff(a))
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@pytest.fixture
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def default():
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"""Simple geometry."""
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x=np.concatenate((np.ones(40,dtype=int),
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np.arange(2,42),
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np.ones(40,dtype=int)*2,
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np.arange(1,41))).reshape(8,5,4,order='F')
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return Grid(x,[8e-6,5e-6,4e-6])
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@pytest.fixture
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def ref_path(ref_path_base):
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"""Directory containing reference results."""
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return ref_path_base/'Grid'
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class TestGrid:
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@pytest.fixture(autouse=True)
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def _patch_execution_stamp(self, patch_execution_stamp):
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print('patched damask.util.execution_stamp')
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@pytest.fixture(autouse=True)
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def _patch_datetime_now(self, patch_datetime_now):
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print('patched datetime.datetime.now')
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def test_diff_equal(self,default):
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assert str(default.diff(default)) == ''
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def test_diff_not_equal(self,default):
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new = Grid(default.material[1:,1:,1:]+1,default.size*.9,np.ones(3)-default.origin,comments=['modified'])
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assert str(default.diff(new)) != ''
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def test_repr(self,default):
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print(default)
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def test_read_write_vtr(self,default,tmp_path):
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default.save(tmp_path/'default')
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new = Grid.load(tmp_path/'default.vtr')
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assert grid_equal(new,default)
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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.save(tmp_path/'no_materialpoint.vtr',parallel=False)
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with pytest.raises(ValueError):
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Grid.load(tmp_path/'no_materialpoint.vtr')
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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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Grid(np.zeros((3,3,3),dtype='complex'),np.ones(3))
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def test_cast_to_int(self):
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g = Grid(np.zeros((3,3,3)),np.ones(3))
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assert g.material.dtype in np.sctypes['int']
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def test_invalid_size(self,default):
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with pytest.raises(ValueError):
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Grid(default.material[1:,1:,1:],
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size=np.ones(2))
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def test_save_load_ASCII(self,default,tmp_path):
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default.save_ASCII(tmp_path/'ASCII')
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default.material -= 1
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assert grid_equal(Grid.load_ASCII(tmp_path/'ASCII'),default)
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def test_invalid_origin(self,default):
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with pytest.raises(ValueError):
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Grid(default.material[1:,1:,1:],
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size=np.ones(3),
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origin=np.ones(4))
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def test_invalid_materials_shape(self,default):
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material = np.ones((3,3))
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with pytest.raises(ValueError):
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Grid(material,
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size=np.ones(3))
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def test_invalid_materials_type(self,default):
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material = np.random.randint(1,300,(3,4,5))==1
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with pytest.raises(TypeError):
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Grid(material)
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@pytest.mark.parametrize('directions,reflect',[
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(['x'], False),
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(['x','y','z'],True),
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(['z','x','y'],False),
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(['y','z'], False)
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]
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)
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def test_mirror(self,default,update,ref_path,directions,reflect):
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modified = default.mirror(directions,reflect)
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tag = f'directions_{"-".join(directions)}+reflect_{reflect}'
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reference = ref_path/f'mirror_{tag}.vtr'
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if update: modified.save(reference)
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assert grid_equal(Grid.load(reference),
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modified)
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@pytest.mark.parametrize('directions',[(1,2,'y'),('a','b','x'),[1]])
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def test_mirror_invalid(self,default,directions):
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with pytest.raises(ValueError):
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default.mirror(directions)
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@pytest.mark.parametrize('directions',[
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['x'],
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['x','y','z'],
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['z','x','y'],
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['y','z'],
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]
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)
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def test_flip(self,default,update,ref_path,directions):
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modified = default.flip(directions)
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tag = f'directions_{"-".join(directions)}'
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reference = ref_path/f'flip_{tag}.vtr'
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if update: modified.save(reference)
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assert grid_equal(Grid.load(reference),
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modified)
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def test_flip_invariant(self,default):
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assert grid_equal(default,default.flip([]))
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@pytest.mark.parametrize('direction',[['x'],['x','y']])
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def test_flip_double(self,default,direction):
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assert grid_equal(default,default.flip(direction).flip(direction))
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@pytest.mark.parametrize('directions',[(1,2,'y'),('a','b','x'),[1]])
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def test_flip_invalid(self,default,directions):
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with pytest.raises(ValueError):
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default.flip(directions)
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@pytest.mark.parametrize('stencil',[1,2,3,4])
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@pytest.mark.parametrize('selection',[None,[1],[1,2,3]])
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@pytest.mark.parametrize('periodic',[True,False])
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def test_clean(self,default,update,ref_path,stencil,selection,periodic):
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current = default.clean(stencil,selection,periodic)
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reference = ref_path/f'clean_{stencil}_{"+".join(map(str,[None] if selection is None else selection))}_{periodic}'
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if update and stencil > 1:
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current.save(reference)
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assert grid_equal(Grid.load(reference) if stencil > 1 else default,
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current
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)
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@pytest.mark.parametrize('cells',[
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(10,11,10),
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[10,13,10],
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np.array((10,10,10)),
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np.array((8, 10,12)),
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np.array((5, 4, 20)),
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np.array((10,20,2))
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]
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)
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def test_scale(self,default,update,ref_path,cells):
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modified = default.scale(cells)
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tag = f'grid_{util.srepr(cells,"-")}'
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reference = ref_path/f'scale_{tag}.vtr'
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if update: modified.save(reference)
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assert grid_equal(Grid.load(reference),
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modified)
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def test_renumber(self,default):
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material = default.material.copy()
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for m in np.unique(material):
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material[material==m] = material.max() + np.random.randint(1,30)
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default.material -= 1
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modified = Grid(material,
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default.size,
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default.origin)
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assert not grid_equal(modified,default)
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assert grid_equal(default,
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modified.renumber())
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def test_substitute(self,default):
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offset = np.random.randint(1,500)
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modified = Grid(default.material + offset,
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default.size,
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default.origin)
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assert not grid_equal(modified,default)
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assert grid_equal(default,
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modified.substitute(np.arange(default.material.max())+1+offset,
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np.arange(default.material.max())+1))
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def test_substitute_invariant(self,default):
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f = np.unique(default.material.flatten())[:np.random.randint(1,default.material.max())]
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t = np.random.permutation(f)
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modified = default.substitute(f,t)
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assert np.array_equiv(t,f) or (not grid_equal(modified,default))
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assert grid_equal(default, modified.substitute(t,f))
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def test_sort(self):
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cells = np.random.randint(5,20,3)
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m = Grid(np.random.randint(1,20,cells)*3,np.ones(3)).sort().material.flatten(order='F')
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for i,v in enumerate(m):
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assert i==0 or v > m[:i].max() or v in m[:i]
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@pytest.mark.parametrize('axis_angle',[np.array([1,0,0,86.7]), np.array([0,1,0,90.4]), np.array([0,0,1,90]),
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np.array([1,0,0,175]),np.array([0,-1,0,178]),np.array([0,0,1,180])])
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def test_rotate360(self,default,axis_angle):
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modified = default.copy()
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for i in range(np.rint(360/axis_angle[3]).astype(int)):
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modified.rotate(Rotation.from_axis_angle(axis_angle,degrees=True))
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assert grid_equal(default,modified)
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@pytest.mark.parametrize('Eulers',[[32.0,68.0,21.0],
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[0.0,32.0,240.0]])
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def test_rotate(self,default,update,ref_path,Eulers):
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modified = default.rotate(Rotation.from_Euler_angles(Eulers,degrees=True))
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tag = f'Eulers_{util.srepr(Eulers,"-")}'
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reference = ref_path/f'rotate_{tag}.vtr'
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if update: modified.save(reference)
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assert grid_equal(Grid.load(reference),
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modified)
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def test_canvas(self,default):
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cells = default.cells
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grid_add = np.random.randint(0,30,(3))
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modified = default.canvas(cells + grid_add)
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assert np.all(modified.material[:cells[0],:cells[1],:cells[2]] == default.material)
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@pytest.mark.parametrize('center1,center2',[(np.random.random(3)*.5,np.random.random()*8),
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(np.random.randint(4,8,(3)),np.random.randint(9,12,(3)))])
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@pytest.mark.parametrize('diameter',[np.random.random(3)*.5,
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np.random.randint(4,10,(3)),
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np.random.rand(),
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np.random.randint(30)])
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@pytest.mark.parametrize('exponent',[np.random.random(3)*.5,
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np.random.randint(4,10,(3)),
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np.random.rand()*4,
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np.random.randint(20)])
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def test_add_primitive_shift(self,center1,center2,diameter,exponent):
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"""Same volume fraction for periodic geometries and different center."""
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o = np.random.random(3)-.5
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g = np.random.randint(8,32,(3))
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s = np.random.random(3)+.5
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G_1 = Grid(np.ones(g,'i'),s,o).add_primitive(diameter,center1,exponent)
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G_2 = Grid(np.ones(g,'i'),s,o).add_primitive(diameter,center2,exponent)
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assert np.count_nonzero(G_1.material!=2) == np.count_nonzero(G_2.material!=2)
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@pytest.mark.parametrize('center',[np.random.randint(4,10,(3)),
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np.random.randint(2,10),
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np.random.rand()*4,
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np.random.rand(3)*10])
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@pytest.mark.parametrize('inverse',[True,False])
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@pytest.mark.parametrize('periodic',[True,False])
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def test_add_primitive_rotation(self,center,inverse,periodic):
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"""Rotation should not change result for sphere."""
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g = np.random.randint(8,32,(3))
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s = np.random.random(3)+.5
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fill = np.random.randint(10)+2
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G_1 = Grid(np.ones(g,'i'),s).add_primitive(.3,center,1,fill,inverse=inverse,periodic=periodic)
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G_2 = Grid(np.ones(g,'i'),s).add_primitive(.3,center,1,fill,Rotation.from_random(),inverse,periodic=periodic)
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assert grid_equal(G_1,G_2)
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@pytest.mark.parametrize('trigger',[[1],[]])
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def test_vicinity_offset(self,trigger):
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offset = np.random.randint(2,4)
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vicinity = np.random.randint(2,4)
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g = np.random.randint(28,40,(3))
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m = np.ones(g,'i')
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x = (g*np.random.permutation(np.array([.5,1,1]))).astype('i')
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m[slice(0,x[0]),slice(0,x[1]),slice(0,x[2])] = 2
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m2 = m.copy()
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for i in [0,1,2]:
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m2[(np.roll(m,+vicinity,i)-m)!=0] += offset
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m2[(np.roll(m,-vicinity,i)-m)!=0] += offset
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if len(trigger) > 0:
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m2[m==1] = 1
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grid = Grid(m,np.random.rand(3)).vicinity_offset(vicinity,offset,trigger=trigger)
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assert np.all(m2==grid.material)
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@pytest.mark.parametrize('periodic',[True,False])
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def test_vicinity_offset_invariant(self,default,periodic):
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offset = default.vicinity_offset(trigger=[default.material.max()+1,
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default.material.min()-1])
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assert np.all(offset.material==default.material)
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@pytest.mark.parametrize('periodic',[True,False])
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def test_tessellation_approaches(self,periodic):
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cells = np.random.randint(10,20,3)
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size = np.random.random(3) + 1.0
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N_seeds= np.random.randint(10,30)
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seeds = np.random.rand(N_seeds,3) * np.broadcast_to(size,(N_seeds,3))
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Voronoi = Grid.from_Voronoi_tessellation( cells,size,seeds, np.arange(N_seeds)+5,periodic)
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Laguerre = Grid.from_Laguerre_tessellation(cells,size,seeds,np.ones(N_seeds),np.arange(N_seeds)+5,periodic)
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assert grid_equal(Laguerre,Voronoi)
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def test_Laguerre_weights(self):
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cells = np.random.randint(10,20,3)
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size = np.random.random(3) + 1.0
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N_seeds= np.random.randint(10,30)
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seeds = np.random.rand(N_seeds,3) * np.broadcast_to(size,(N_seeds,3))
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weights= np.full((N_seeds),-np.inf)
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ms = np.random.randint(N_seeds)
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weights[ms] = np.random.random()
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Laguerre = Grid.from_Laguerre_tessellation(cells,size,seeds,weights,periodic=np.random.random()>0.5)
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assert np.all(Laguerre.material == ms)
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@pytest.mark.parametrize('approach',['Laguerre','Voronoi'])
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def test_tessellate_bicrystal(self,approach):
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cells = np.random.randint(5,10,3)*2
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size = cells.astype(float)
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seeds = np.vstack((size*np.array([0.5,0.25,0.5]),size*np.array([0.5,0.75,0.5])))
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material = np.zeros(cells)
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material[:,cells[1]//2:,:] = 1
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if approach == 'Laguerre':
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grid = Grid.from_Laguerre_tessellation(cells,size,seeds,np.ones(2),periodic=np.random.random()>0.5)
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elif approach == 'Voronoi':
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grid = Grid.from_Voronoi_tessellation(cells,size,seeds, periodic=np.random.random()>0.5)
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assert np.all(grid.material == material)
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@pytest.mark.parametrize('surface',['Schwarz P',
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'Double Primitive',
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'Schwarz D',
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'Complementary D',
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'Double Diamond',
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'Dprime',
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'Gyroid',
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'Gprime',
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'Karcher K',
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'Lidinoid',
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'Neovius',
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'Fisher-Koch S',
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])
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def test_minimal_surface_basic_properties(self,surface):
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cells = np.random.randint(60,100,3)
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size = np.ones(3)+np.random.rand(3)
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threshold = 2*np.random.rand()-1.
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periods = np.random.randint(2)+1
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materials = np.random.randint(0,40,2)
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grid = Grid.from_minimal_surface(cells,size,surface,threshold,periods,materials)
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assert set(grid.material.flatten()) | set(materials) == set(materials) \
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and (grid.size == size).all() and (grid.cells == cells).all()
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@pytest.mark.parametrize('surface,threshold',[('Schwarz P',0),
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('Double Primitive',-1./6.),
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('Schwarz D',0),
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('Complementary D',0),
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('Double Diamond',-0.133),
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('Dprime',-0.0395),
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('Gyroid',0),
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('Gprime',0.22913),
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('Karcher K',0.17045),
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('Lidinoid',0.14455),
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('Neovius',0),
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('Fisher-Koch S',0),
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])
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def test_minimal_surface_volume(self,surface,threshold):
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cells = np.ones(3,dtype=int)*64
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grid = Grid.from_minimal_surface(cells,np.ones(3),surface,threshold)
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assert np.isclose(np.count_nonzero(grid.material==1)/np.prod(grid.cells),.5,rtol=1e-3)
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def test_from_table(self):
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cells = np.random.randint(60,100,3)
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size = np.ones(3)+np.random.rand(3)
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coords = grid_filters.coordinates0_point(cells,size).reshape(-1,3,order='F')
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z=np.ones(cells.prod())
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z[cells[:2].prod()*int(cells[2]/2):]=0
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t = Table(np.column_stack((coords,z)),{'coords':3,'z':1})
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g = Grid.from_table(t,'coords',['1_coords','z'])
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assert g.N_materials == g.cells[0]*2 and (g.material[:,:,-1]-g.material[:,:,0] == cells[0]).all()
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def test_from_table_recover(self,tmp_path):
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cells = np.random.randint(60,100,3)
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size = np.ones(3)+np.random.rand(3)
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s = seeds.from_random(size,np.random.randint(60,100))
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grid = Grid.from_Voronoi_tessellation(cells,size,s)
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coords = grid_filters.coordinates0_point(cells,size)
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t = Table(np.column_stack((coords.reshape(-1,3,order='F'),grid.material.flatten(order='F'))),{'c':3,'m':1})
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assert grid_equal(grid.sort().renumber(),Grid.from_table(t,'c',['m']))
|
|
|
|
|
|
@pytest.mark.parametrize('periodic',[True,False])
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@pytest.mark.parametrize('direction',['x','y','z',['x','y'],'zy','xz',['x','y','z']])
|
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def test_get_grain_boundaries(self,update,ref_path,periodic,direction):
|
|
grid = Grid.load(ref_path/'get_grain_boundaries_8g12x15x20.vtr')
|
|
current = grid.get_grain_boundaries(periodic,direction)
|
|
if update:
|
|
current.save(ref_path/f'get_grain_boundaries_8g12x15x20_{direction}_{periodic}.vtu',parallel=False)
|
|
reference = VTK.load(ref_path/f'get_grain_boundaries_8g12x15x20_{"".join(direction)}_{periodic}.vtu')
|
|
assert current.__repr__() == reference.__repr__()
|
|
|
|
@pytest.mark.parametrize('directions',[(1,2,'y'),('a','b','x'),[1]])
|
|
def test_get_grain_boundaries_invalid(self,default,directions):
|
|
with pytest.raises(ValueError):
|
|
default.get_grain_boundaries(directions=directions)
|
|
|
|
def test_load_DREAM3D(self,ref_path):
|
|
grain = Grid.load_DREAM3D(ref_path/'2phase_irregularGrid.dream3d','FeatureIds')
|
|
point = Grid.load_DREAM3D(ref_path/'2phase_irregularGrid.dream3d')
|
|
|
|
assert np.allclose(grain.origin,point.origin) and \
|
|
np.allclose(grain.size,point.size) and \
|
|
(grain.sort().material == point.material+1).all()
|
|
|
|
|
|
def test_load_DREAM3D_reference(self,ref_path,update):
|
|
current = Grid.load_DREAM3D(ref_path/'measured.dream3d')
|
|
reference = Grid.load(ref_path/'measured')
|
|
if update:
|
|
current.save(ref_path/'measured.vtr')
|
|
|
|
assert grid_equal(current,reference)
|