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EBSD dataset for testing 

use only non-segmented data. Automatically fall back to numeric phase
names if cell_ensemble_data is not found
This commit is contained in:
Martin Diehl 2021-03-23 13:42:04 +01:00
parent 549b849730
commit e0e088eaa8
9 changed files with 66972 additions and 11 deletions
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20
python/damask/_configmaterial.py
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@ -122,9 +122,9 @@ class ConfigMaterial(Config):
cell_data : str
Name of the group (folder) containing cell-wise data. Defaults to 'CellData'.
cell_ensemble_data : str
Name of the group (folder) containing data of cell ensembles.
This group is used to inquire the name of the phases. If set to
'None', phases get numeric IDs. Defaults to 'CellEnsembleData'.
Name of the group (folder) containing data of cell ensembles. This
group is used to inquire the name of the phases. Phases will get
numeric IDs if this group is not found. Defaults to 'CellEnsembleData'.
phases : str
Name of the dataset containing the phase ID (cell-wise or grain-wise).
Defaults to 'Phases'.
@ -132,8 +132,8 @@ class ConfigMaterial(Config):
Name of the dataset containing the crystallographic orientation as
Euler angles in radians (cell-wise or grain-wise). Defaults to 'EulerAngles'.
phase_names : str
Name of the dataset containing the phase names. It is not used if
cell_ensemble_data is set to 'None. Defaults to 'PhaseName'.
Name of the dataset containing the phase names. Phases will get
numeric IDs if this dataset is not found. Defaults to 'PhaseName'.
base_group : str
Path to the group (folder) that contains geometry (_SIMPL_GEOMETRY),
and grain- or cell-wise data. Defaults to None, in which case
@ -153,9 +153,13 @@ class ConfigMaterial(Config):
O = Rotation.from_Euler_angles(f[os.path.join(b,grain_data,Euler_angles)]).as_quaternion() # noqa
idx = np.arange(phase.size)
if cell_ensemble_data is not None:
names = np.array([s.decode() for s in f[os.path.join(b,cell_ensemble_data,phase_names)]])
phase = names[phase]
if cell_ensemble_data is not None and phase_names is not None:
try:
names = np.array([s.decode() for s in f[os.path.join(b,cell_ensemble_data,phase_names)]])
phase = names[phase]
except KeyError:
pass
base_config = ConfigMaterial({'phase':{k if isinstance(k,int) else str(k):'t.b.d.' for k in np.unique(phase)},
'homogenization':{'direct':{'N_constituents':1}}})

1
python/tests/reference/ConfigMaterial/measured.dream3d Symbolic link
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@ -0,0 +1 @@
../Grid/measured.dream3d

66831
python/tests/reference/ConfigMaterial/measured.material_yaml Normal file
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1
python/tests/reference/ConfigMaterial/measured.xdmf Symbolic link
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../Grid/measured.xdmf

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python/tests/reference/Grid/measured.dream3d Normal file
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30
python/tests/reference/Grid/measured.vtr Normal file
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77
python/tests/reference/Grid/measured.xdmf Normal file
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@ -0,0 +1,77 @@
<?xml version="1.0"?>
<!DOCTYPE Xdmf SYSTEM "Xdmf.dtd"[]>
<Xdmf xmlns:xi="http://www.w3.org/2003/XInclude" Version="2.2">
<Domain>
<!-- *************** START OF Small IN100 *************** -->
<Grid Name="Small IN100" GridType="Uniform">
<Topology TopologyType="3DCoRectMesh" Dimensions="2 102 202 "></Topology>
<Geometry Type="ORIGIN_DXDYDZ">
<!-- Origin Z, Y, X -->
<DataItem Format="XML" Dimensions="3">0 35 -294.7</DataItem>
<!-- DxDyDz (Spacing/Resolution) Z, Y, X -->
<DataItem Format="XML" Dimensions="3">0.35 0.35 0.35</DataItem>
</Geometry>
<Attribute Name="Confidence Index" AttributeType="Scalar" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 1" NumberType="Float" Precision="4" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/Confidence Index
</DataItem>
</Attribute>
<Attribute Name="EulerAngles" AttributeType="Vector" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 3" NumberType="Float" Precision="4" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/EulerAngles
</DataItem>
</Attribute>
<Attribute Name="FeatureIds" AttributeType="Scalar" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 1" NumberType="Int" Precision="4" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/FeatureIds
</DataItem>
</Attribute>
<Attribute Name="Fit" AttributeType="Scalar" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 1" NumberType="Float" Precision="4" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/Fit
</DataItem>
</Attribute>
<Attribute Name="IPFColor" AttributeType="Vector" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 3" NumberType="UChar" Precision="1" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/IPFColor
</DataItem>
</Attribute>
<Attribute Name="Image Quality" AttributeType="Scalar" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 1" NumberType="Float" Precision="4" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/Image Quality
</DataItem>
</Attribute>
<Attribute Name="Mask" AttributeType="Scalar" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 1" NumberType="uchar" Precision="1" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/Mask
</DataItem>
</Attribute>
<Attribute Name="ParentIds" AttributeType="Scalar" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 1" NumberType="Int" Precision="4" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/ParentIds
</DataItem>
</Attribute>
<Attribute Name="Phases" AttributeType="Scalar" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 1" NumberType="Int" Precision="4" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/Phases
</DataItem>
</Attribute>
<Attribute Name="SEM Signal" AttributeType="Scalar" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 1" NumberType="Float" Precision="4" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/SEM Signal
</DataItem>
</Attribute>
<Attribute Name="X Position" AttributeType="Scalar" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 1" NumberType="Float" Precision="4" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/X Position
</DataItem>
</Attribute>
<Attribute Name="Y Position" AttributeType="Scalar" Center="Cell">
<DataItem Format="HDF" Dimensions="1 101 201 1" NumberType="Float" Precision="4" >
measured.dream3d:/DataContainers/Small IN100/EBSD Scan Data/Y Position
</DataItem>
</Attribute>
</Grid>
<!-- *************** END OF Small IN100 *************** -->
</Domain>
</Xdmf>

14
python/tests/test_ConfigMaterial.py
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@ -1,5 +1,5 @@
import os
import filecmp
import pytest
import numpy as np
@ -118,8 +118,8 @@ class TestConfigMaterial:
point_c = ConfigMaterial.load_DREAM3D(ref_path/'2phase_irregularGrid.dream3d',
cell_ensemble_data = cell_ensemble_data)
assert point_c.is_valid and grain_c.is_valid
assert len(point_c['material'])+1 == len(grain_c['material'])
assert point_c.is_valid and grain_c.is_valid and \
len(point_c['material'])+1 == len(grain_c['material'])
grain_m = Grid.load_DREAM3D(ref_path/'2phase_irregularGrid.dream3d','FeatureIds').material.flatten()
point_m = Grid.load_DREAM3D(ref_path/'2phase_irregularGrid.dream3d').material.flatten()
@ -130,3 +130,11 @@ class TestConfigMaterial:
grain_c['material'][j]['constituents'][0]['O'])
assert point_c['material'][i]['constituents'][0]['phase'] == \
grain_c['material'][j]['constituents'][0]['phase']
def test_load_DREAM3D_reference(self,tmp_path,ref_path,update):
config = ConfigMaterial.load_DREAM3D(ref_path/'measured.dream3d',cell_data='EBSD Scan Data')
config.save(tmp_path/'material.yaml')
if update:
config.save(ref_path/'measured.material_yaml')
assert config.is_valid and filecmp.cmp(tmp_path/'material.yaml',ref_path/'measured.material_yaml')

9
python/tests/test_Grid.py
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@ -439,3 +439,12 @@ class TestGrid:
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',cell_data='EBSD Scan Data')
reference = Grid.load(ref_path/'measured')
if update:
current.save(ref_path/'measured.vtr')
assert grid_equal(current,reference)