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DAMASK_EICMD
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works again and uses DADF5 intrisic features

This commit is contained in:
Martin Diehl 2019-12-04 18:30:08 +01:00
parent e237d30e99
commit 19c55990ab
1 changed files with 10 additions and 11 deletions
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19
processing/post/DADF5toDREAM3D.py
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@ -49,7 +49,7 @@ Phase_types = {'Primary': 0} #further additions to these can be done by looking
# -------------------------------------------------------------------- # --------------------------------------------------------------------
parser = argparse.ArgumentParser(description='Creating a file for DREAM3D from DAMASK data') parser = argparse.ArgumentParser(description='Creating a file for DREAM3D from DAMASK data')
parser.add_argument('filenames',nargs='+',help='HDF5 based output file') parser.add_argument('filenames',nargs='+',help='HDF5 based output file')
parser.add_argument('--inc',nargs='+',help='Increment for which DREAM3D to be used, eg. 00025',type=int) parser.add_argument('--inc',nargs='+',help='Increment for which DREAM3D to be used, eg. 25',type=int)
parser.add_argument('-d','--dir', dest='dir',default='postProc',metavar='string', parser.add_argument('-d','--dir', dest='dir',default='postProc',metavar='string',
help='name of subdirectory to hold output') help='name of subdirectory to hold output')
@ -59,15 +59,13 @@ options = parser.parse_args()
# loop over input files # loop over input files
for filename in options.filenames: for filename in options.filenames:
f = damask.DADF5(filename) #DAMASK output file f = damask.DADF5(filename) #DAMASK output file
count = 0 for increment in options.inc:
for increment in f.increments: f.set_by_increment(increment,increment)
if int(increment[3:]) not in options.inc: if len(f.visible['increments']) == 0:
count = count + 1
continue continue
#-------output file creation------------------------------------- #-------output file creation-------------------------------------
dirname = os.path.abspath(os.path.join(os.path.dirname(filename),options.dir)) dirname = os.path.abspath(os.path.join(os.path.dirname(filename),options.dir))
print(dirname)
try: try:
os.mkdir(dirname) os.mkdir(dirname)
except FileExistsError: except FileExistsError:
@ -90,11 +88,10 @@ for filename in options.filenames:
# Phase information of DREAM.3D is constituent ID in DAMASK # Phase information of DREAM.3D is constituent ID in DAMASK
o[cell_data_label + '/Phases'] = f.get_constituent_ID().reshape(tuple(f.grid)+(1,)) o[cell_data_label + '/Phases'] = f.get_constituent_ID().reshape(tuple(f.grid)+(1,))
# Data quaternions # Data quaternions
DAMASK_quaternion = f.read_dataset(f.get_dataset_location('orientation'),0) DAMASK_quaternion = f.read_dataset(f.get_dataset_location('orientation'))
DREAM_3D_quaternion = np.empty((np.prod(f.grid),4),dtype=np.float32)
# Convert: DAMASK uses P = -1, DREAM.3D uses P = +1. Also change position of imagninary part # Convert: DAMASK uses P = -1, DREAM.3D uses P = +1. Also change position of imagninary part
DREAM_3D_quaternion = np.hstack((-DAMASK_quaternion['x'],-DAMASK_quaternion['y'],-DAMASK_quaternion['z'], DREAM_3D_quaternion = np.hstack((-DAMASK_quaternion['x'],-DAMASK_quaternion['y'],-DAMASK_quaternion['z'],
DAMASK_quaternion['w'])) DAMASK_quaternion['w'])).astype(np.float32)
o[cell_data_label + '/Quats'] = DREAM_3D_quaternion.reshape(tuple(f.grid)+(4,)) o[cell_data_label + '/Quats'] = DREAM_3D_quaternion.reshape(tuple(f.grid)+(4,))
# Attributes to CellData group # Attributes to CellData group
@ -109,12 +106,14 @@ for filename in options.filenames:
# phase attributes # phase attributes
o[cell_data_label + '/Phases'].attrs['ComponentDimensions'] = np.array([1],np.uint64) o[cell_data_label + '/Phases'].attrs['ComponentDimensions'] = np.array([1],np.uint64)
o[cell_data_label + '/Phases'].attrs['ObjectType'] = 'DataArray<int32_t>' o[cell_data_label + '/Phases'].attrs['ObjectType'] = 'DataArray<int32_t>'
o[cell_data_label + '/Phases'].attrs['TupleDimensions'] = f.grid.astype(np.uint64)
# Quats attributes # Quats attributes
o[cell_data_label + '/Quats'].attrs['ComponentDimensions'] = np.array([4],np.uint64) o[cell_data_label + '/Quats'].attrs['ComponentDimensions'] = np.array([4],np.uint64)
o[cell_data_label + '/Quats'].attrs['ObjectType'] = 'DataArray<float>' o[cell_data_label + '/Quats'].attrs['ObjectType'] = 'DataArray<float>'
o[cell_data_label + '/Quats'].attrs['TupleDimensions'] = f.grid.astype(np.uint64)
# Create EnsembleAttributeMatrix # Create EnsembleAttributeMatrix
ensemble_label = data_container_label + '/EnsembleAttributeMatrix' ensemble_label = data_container_label + '/EnsembleAttributeMatrix'
# Data CrystalStructures # Data CrystalStructures