autodetect base group

python/damask/_configmaterial.py

@@ -98,7 +98,7 @@ class ConfigMaterial(Config):
 
 
     @staticmethod
-    def load_DREAM3D(fname,base_group,data_group,ori_data,phase_id,phase_name):
+    def load_DREAM3D(fname,data_group,ori_data,phase_id,phase_name,base_group=None):
         """
         Load material data from DREAM3D file.
 
@@ -150,10 +150,10 @@ class ConfigMaterial(Config):
         ...                       'EulerAngles','Phases',['Ferrite','Martensite'])
 
         """
-        root_dir = 'DataContainers'
+        b = util.DREAM3D_base_group(fname) if base_group is None else base_group
         hdf = h5py.File(fname,'r')
 
-        orientation_path = path.join(root_dir,base_group,data_group,ori_data)
+        orientation_path = path.join(b,data_group,ori_data)
         if hdf[orientation_path].attrs['TupleDimensions'].shape == (3,):
            grain_orientations = np.array(hdf[orientation_path]).reshape(-1,3,order='F')
         else:
@@ -161,7 +161,7 @@ class ConfigMaterial(Config):
 
         grain_quats = Rotation.from_Euler_angles(grain_orientations).as_quaternion()
 
-        phase_path  = path.join(root_dir,base_group,data_group,phase_id)
+        phase_path  = path.join(b,data_group,phase_id)
         if hdf[phase_path].attrs['TupleDimensions'].shape == (3,):
            grain_phase = np.array(hdf[phase_path]).reshape(-1,order='F')
         else:

python/damask/_grid.py

@@ -256,7 +256,7 @@ class Grid:
 
 
     @staticmethod
-    def load_DREAM3D(fname,base_group,point_data=None,material='FeatureIds'):
+    def load_DREAM3D(fname,cell_data=None,material='FeatureIds',base_group=None):
         """
         Load from DREAM.3D file.
 
@@ -264,26 +264,26 @@ class Grid:
         ----------
         fname : str
             Filename of the DREAM.3D file
-        base_group : str
+        cell_data : str, optional
-            Name of the group (folder) below 'DataContainers',
-            for example 'SyntheticVolumeDataContainer'.
-        point_data : str, optional
             Name of the group (folder) containing the pointwise material data,
             for example 'CellData'. Defaults to None, in which case points are consecutively numbered.
         material : str, optional
             Name of the dataset containing the material ID.
             Defaults to 'FeatureIds'.
+        base_group : str
+            Path to the group (folder) that contains the geometry (_SIMPL_GEOMETRY),
+            and, optionally, the cell data. Defaults to None, in which case
+            it is set as the path that contains _SIMPL_GEOMETRY/SPACING.
  
         """
+        b = util.DREAM3D_base_group(fname) if base_group is None else base_group
         f = h5py.File(fname, 'r')
-        g = os.path.join('DataContainers',base_group,'_SIMPL_GEOMETRY')
+        cells  = f[os.path.join(b,'_SIMPL_GEOMETRY','DIMENSIONS')][()]
-        cells  = f[os.path.join(g,'DIMENSIONS')][()]
+        size   = f[os.path.join(b,'_SIMPL_GEOMETRY','SPACING')][()] * cells
-        size   = f[os.path.join(g,'SPACING')][()] * cells
+        origin = f[os.path.join(b,'_SIMPL_GEOMETRY','ORIGIN')][()]
-        origin = f[os.path.join(g,'ORIGIN')][()]
 
-        ma = np.arange(cells.prod(),dtype=int) \
+        ma = np.arange(cells.prod(),dtype=int) if cell_data is None else \
-             if point_data is None else \
+             np.reshape(f[os.path.join(b,cell_data,material)],cells.prod())
-             np.reshape(f[os.path.join('DataContainers',base_group,point_data,material)],cells.prod())
 
         return Grid(ma.reshape(cells,order='F'),size,origin,util.execution_stamp('Grid','load_DREAM3D'))
 

python/damask/util.py

@@ -9,6 +9,7 @@ from functools import reduce
 from optparse import Option
 
 import numpy as np
+import h5py
 
 from . import version
 
@@ -27,7 +28,8 @@ __all__=[
          'extendableOption',
          'execution_stamp',
          'shapeshifter', 'shapeblender',
-         'extend_docstring', 'extended_docstring'
+         'extend_docstring', 'extended_docstring',
+         'DREAM3D_base_group'
         ]
 
 ####################################################################################################
@@ -376,6 +378,15 @@ def extended_docstring(f,extra_docstring):
     return _decorator
 
 
+def DREAM3D_base_group(fname):
+    with h5py.File(fname,'r') as f:
+        base_group = f.visit(lambda path: path.rsplit('/',2)[0] if '_SIMPL_GEOMETRY/SPACING' in path else None)
+    
+    if base_group is None:
+        raise ValueError
+    
+    return base_group
+
 ####################################################################################################
 # Classes
 ####################################################################################################