Martin Diehl
parent
a0b6c2690b
commit
870c0f7aca
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@ -20,9 +20,9 @@ parser.add_argument('filenames', nargs='+',
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parser.add_argument('-d','--dir', dest='dir',default='postProc',metavar='string',
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help='name of subdirectory relative to the location of the DADF5 file to hold output')
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parser.add_argument('--mat', nargs='+',
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help='labels for materialpoint',dest='mat')
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help='labels for homogenization',dest='mat')
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parser.add_argument('--con', nargs='+',
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help='labels for constituent',dest='con')
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help='labels for phase',dest='con')
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options = parser.parse_args()
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@ -41,15 +41,15 @@ for filename in options.filenames:
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table = damask.Table(np.ones(np.product(results.grid),dtype=int)*int(inc[3:]),{'inc':(1,)})\
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.add('pos',coords.reshape(-1,3))
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results.pick('materialpoints',False)
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results.pick('constituents', True)
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results.pick('homogenizations',False)
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results.pick('phases',True)
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for label in options.con:
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x = results.get_dataset_location(label)
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if len(x) != 0:
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table = table.add(label,results.read_dataset(x,0,plain=True).reshape(results.grid.prod(),-1))
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results.pick('constituents', False)
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results.pick('materialpoints',True)
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results.pick('phases',False)
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results.pick('homogenizations',True)
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for label in options.mat:
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x = results.get_dataset_location(label)
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if len(x) != 0:
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@ -41,14 +41,10 @@ class Result:
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"""
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with h5py.File(fname,'r') as f:
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try:
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self.version_major = f.attrs['DADF5_version_major']
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self.version_minor = f.attrs['DADF5_version_minor']
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except KeyError:
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self.version_major = f.attrs['DADF5-major']
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self.version_minor = f.attrs['DADF5-minor']
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if self.version_major != 0 or not 2 <= self.version_minor <= 7:
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if self.version_major != 0 or not 7 <= self.version_minor <= 8:
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raise TypeError(f'Unsupported DADF5 version {self.version_major}.{self.version_minor}')
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self.structured = 'grid' in f['geometry'].attrs.keys()
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@ -56,35 +52,33 @@ class Result:
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if self.structured:
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self.grid = f['geometry'].attrs['grid']
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self.size = f['geometry'].attrs['size']
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self.origin = f['geometry'].attrs['origin'] if self.version_major == 0 and self.version_minor >= 5 else \
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np.zeros(3)
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self.origin = f['geometry'].attrs['origin']
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r=re.compile('inc[0-9]+')
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increments_unsorted = {int(i[3:]):i for i in f.keys() if r.match(i)}
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self.increments = [increments_unsorted[i] for i in sorted(increments_unsorted)]
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self.times = [round(f[i].attrs['time/s'],12) for i in self.increments]
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self.Nmaterialpoints, self.Nconstituents = np.shape(f['mapping/cellResults/constituent'])
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self.materialpoints = [m.decode() for m in np.unique(f['mapping/cellResults/materialpoint']['Name'])]
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self.constituents = [c.decode() for c in np.unique(f['mapping/cellResults/constituent'] ['Name'])]
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self.N_materialpoints, self.N_constituents = np.shape(f['mapping/phase'])
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# faster, but does not work with (deprecated) DADF5_postResults
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#self.materialpoints = [m for m in f['inc0/materialpoint']]
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#self.constituents = [c for c in f['inc0/constituent']]
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self.homogenizations = [m.decode() for m in np.unique(f['mapping/homogenization']['Name'])]
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self.phases = [c.decode() for c in np.unique(f['mapping/phase']['Name'])]
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self.con_physics = []
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for c in self.constituents:
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self.con_physics += f['/'.join([self.increments[0],'constituent',c])].keys()
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self.con_physics = list(set(self.con_physics)) # make unique
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self.out_type_ph = []
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for c in self.phases:
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self.out_type_ph += f['/'.join([self.increments[0],'phase',c])].keys()
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self.out_type_ph = list(set(self.out_type_ph)) # make unique
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self.mat_physics = []
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for m in self.materialpoints:
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self.mat_physics += f['/'.join([self.increments[0],'materialpoint',m])].keys()
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self.mat_physics = list(set(self.mat_physics)) # make unique
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self.out_type_ho = []
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for m in self.homogenizations:
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self.out_type_ho += f['/'.join([self.increments[0],'homogenization',m])].keys()
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self.out_type_ho = list(set(self.out_type_ho)) # make unique
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self.selection = {'increments': self.increments,
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'constituents': self.constituents,'materialpoints': self.materialpoints,
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'con_physics': self.con_physics, 'mat_physics': self.mat_physics
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'phases': self.phases,
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'homogenizations': self.homogenizations,
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'out_type_ph': self.out_type_ph,
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'out_type_ho': self.out_type_ho
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}
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self.fname = Path(fname).absolute()
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@ -295,16 +289,16 @@ class Result:
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Must not mix nodal end cell data.
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Only data within
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- inc?????/constituent/*_*/*
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- inc?????/materialpoint/*_*/*
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- inc?????/geometry/*
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- inc*/phase/*/*
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- inc*/homogenization/*/*
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- inc*/geometry/*
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are considered.
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Parameters
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----------
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datasets : iterable or str
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component : int
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homogenization component to consider for constituent data
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Constituent to consider for phase data
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tagged : bool
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tag Table.column name with '#component'
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defaults to False
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@ -313,8 +307,8 @@ class Result:
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defaults to True
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"""
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sets = datasets if hasattr(datasets,'__iter__') and not isinstance(datasets,str) \
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else [datasets]
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sets = datasets if hasattr(datasets,'__iter__') and not isinstance(datasets,str) else \
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[datasets]
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tag = f'#{component}' if tagged else ''
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tbl = {} if split else None
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inGeom = {}
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@ -327,15 +321,15 @@ class Result:
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key = '/'.join([prop,name+tag])
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if key not in inGeom:
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if prop == 'geometry':
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inGeom[key] = inData[key] = np.arange(self.Nmaterialpoints)
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elif prop == 'constituent':
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inGeom[key] = np.where(f['mapping/cellResults/constituent'][:,component]['Name'] == str.encode(name))[0]
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inData[key] = f['mapping/cellResults/constituent'][inGeom[key],component]['Position']
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else:
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inGeom[key] = np.where(f['mapping/cellResults/materialpoint']['Name'] == str.encode(name))[0]
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inData[key] = f['mapping/cellResults/materialpoint'][inGeom[key].tolist()]['Position']
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inGeom[key] = inData[key] = np.arange(self.N_materialpoints)
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elif prop == 'phase':
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inGeom[key] = np.where(f['mapping/phase'][:,component]['Name'] == str.encode(name))[0]
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inData[key] = f['mapping/phase'][inGeom[key],component]['Position']
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elif prop == 'homogenization':
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inGeom[key] = np.where(f['mapping/homogenization']['Name'] == str.encode(name))[0]
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inData[key] = f['mapping/homogenization'][inGeom[key].tolist()]['Position']
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shape = np.shape(f[path])
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data = np.full((self.Nmaterialpoints,) + (shape[1:] if len(shape)>1 else (1,)),
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data = np.full((self.N_materialpoints,) + (shape[1:] if len(shape)>1 else (1,)),
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np.nan,
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dtype=np.dtype(f[path]))
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data[inGeom[key]] = (f[path] if len(shape)>1 else np.expand_dims(f[path],1))[inData[key]]
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@ -344,12 +338,12 @@ class Result:
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try:
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tbl[inc].add(path,data)
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except KeyError:
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tbl[inc] = Table(data.reshape(self.Nmaterialpoints,-1),{path:data.shape[1:]})
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tbl[inc] = Table(data.reshape(self.N_materialpoints,-1),{path:data.shape[1:]})
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else:
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try:
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tbl.add(path,data)
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except AttributeError:
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tbl = Table(data.reshape(self.Nmaterialpoints,-1),{path:data.shape[1:]})
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tbl = Table(data.reshape(self.N_materialpoints,-1),{path:data.shape[1:]})
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return tbl
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@ -359,8 +353,8 @@ class Result:
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Return groups that contain all requested datasets.
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Only groups within
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- inc*/constituent/*/*
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- inc*/materialpoint/*/*
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- inc*/phase/*/*
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- inc*/homogenization/*/*
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- inc*/geometry/*
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are considered as they contain user-relevant data.
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@ -392,7 +386,7 @@ class Result:
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with h5py.File(self.fname,'r') as f:
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for i in self.iterate('increments'):
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for o,p in zip(['constituents','materialpoints'],['con_physics','mat_physics']):
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for o,p in zip(['phases','homogenizations'],['out_type_ph','out_type_ho']):
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for oo in self.iterate(o):
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for pp in self.iterate(p):
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group = '/'.join([i,o[:-1],oo,pp]) # o[:-1]: plural/singular issue
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@ -411,7 +405,7 @@ class Result:
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with h5py.File(self.fname,'r') as f:
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for i in self.iterate('increments'):
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message += f'\n{i} ({self.times[self.increments.index(i)]}s)\n'
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for o,p in zip(['constituents','materialpoints'],['con_physics','mat_physics']):
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for o,p in zip(['phases','homogenizations'],['out_type_ph','out_type_ho']):
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message += f' {o[:-1]}\n'
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for oo in self.iterate(o):
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message += f' {oo}\n'
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@ -445,7 +439,7 @@ class Result:
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path.append(k)
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except KeyError:
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pass
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for o,p in zip(['constituents','materialpoints'],['con_physics','mat_physics']):
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for o,p in zip(['phases','homogenizations'],['out_type_ph','out_type_ho']):
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for oo in self.iterate(o):
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for pp in self.iterate(p):
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k = '/'.join([i,o[:-1],oo,pp,label])
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@ -460,7 +454,7 @@ class Result:
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def get_constituent_ID(self,c=0):
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"""Pointwise constituent ID."""
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with h5py.File(self.fname,'r') as f:
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names = f['/mapping/cellResults/constituent']['Name'][:,c].astype('str')
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names = f['/mapping/phase']['Name'][:,c].astype('str')
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return np.array([int(n.split('_')[0]) for n in names.tolist()],dtype=np.int32)
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@ -483,7 +477,7 @@ class Result:
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If more than one path is given, the dataset is composed of the individual contributions.
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"""
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with h5py.File(self.fname,'r') as f:
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shape = (self.Nmaterialpoints,) + np.shape(f[path[0]])[1:]
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shape = (self.N_materialpoints,) + np.shape(f[path[0]])[1:]
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if len(shape) == 1: shape = shape +(1,)
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dataset = np.full(shape,np.nan,dtype=np.dtype(f[path[0]]))
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for pa in path:
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@ -493,17 +487,17 @@ class Result:
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dataset = np.array(f[pa])
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continue
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p = np.where(f['mapping/cellResults/constituent'][:,c]['Name'] == str.encode(label))[0]
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p = np.where(f['mapping/phase'][:,c]['Name'] == str.encode(label))[0]
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if len(p)>0:
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u = (f['mapping/cellResults/constituent']['Position'][p,c])
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u = (f['mapping/phase']['Position'][p,c])
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a = np.array(f[pa])
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if len(a.shape) == 1:
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a=a.reshape([a.shape[0],1])
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dataset[p,:] = a[u,:]
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p = np.where(f['mapping/cellResults/materialpoint']['Name'] == str.encode(label))[0]
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p = np.where(f['mapping/homogenization']['Name'] == str.encode(label))[0]
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if len(p)>0:
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u = (f['mapping/cellResults/materialpoint']['Position'][p.tolist()])
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u = (f['mapping/homogenization']['Position'][p.tolist()])
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a = np.array(f[pa])
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if len(a.shape) == 1:
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a=a.reshape([a.shape[0],1])
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@ -1132,7 +1126,7 @@ class Result:
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This works only for scalar, 3-vector and 3x3-tensor data.
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Selection is not taken into account.
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"""
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if len(self.constituents) != 1 or not self.structured:
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if self.N_constituents != 1 or not self.structured:
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raise NotImplementedError('XDMF only available for grid results with 1 constituent.')
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xdmf=ET.Element('Xdmf')
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@ -1194,7 +1188,7 @@ class Result:
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'Dimensions': '{} {} {} 3'.format(*(self.grid+1))}
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data_items[-1].text=f'{os.path.split(self.fname)[1]}:/{inc}/geometry/u_n'
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for o,p in zip(['constituents','materialpoints'],['con_physics','mat_physics']):
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for o,p in zip(['phases','homogenizations'],['out_type_ph','out_type_ho']):
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for oo in getattr(self,o):
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for pp in getattr(self,p):
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g = '/'.join([inc,o[:-1],oo,pp])
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@ -1250,12 +1244,12 @@ class Result:
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for inc in util.show_progress(self.iterate('increments'),len(self.selection['increments'])):
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materialpoints_backup = self.selection['materialpoints'].copy()
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self.pick('materialpoints',False)
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picked_backup_ho = self.selection['homogenizations'].copy()
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self.pick('homogenizations',False)
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for label in (labels if isinstance(labels,list) else [labels]):
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for p in self.iterate('con_physics'):
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for p in self.iterate('out_type_ph'):
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if p != 'generic':
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for c in self.iterate('constituents'):
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for c in self.iterate('phases'):
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x = self.get_dataset_location(label)
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if len(x) == 0:
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continue
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@ -1266,17 +1260,17 @@ class Result:
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if len(x) == 0:
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continue
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array = self.read_dataset(x,0)
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ph_name = re.compile(r'(?<=(constituent\/))(.*?)(?=(generic))') # identify phase name
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ph_name = re.compile(r'(?<=(phase\/))(.*?)(?=(generic))') # identify phase name
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dset_name = '1_' + re.sub(ph_name,r'',x[0].split('/',1)[1]) # removing phase name
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v.add(array,dset_name)
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self.pick('materialpoints',materialpoints_backup)
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self.pick('homogenizations',picked_backup_ho)
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constituents_backup = self.selection['constituents'].copy()
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self.pick('constituents',False)
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picked_backup_ph = self.selection['phases'].copy()
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self.pick('phases',False)
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for label in (labels if isinstance(labels,list) else [labels]):
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for p in self.iterate('mat_physics'):
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for p in self.iterate('out_type_ho'):
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if p != 'generic':
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for m in self.iterate('materialpoints'):
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for m in self.iterate('homogenizations'):
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x = self.get_dataset_location(label)
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if len(x) == 0:
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continue
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@ -1288,7 +1282,7 @@ class Result:
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continue
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array = self.read_dataset(x,0)
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v.add(array,'1_'+x[0].split('/',1)[1])
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self.pick('constituents',constituents_backup)
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self.pick('phases',picked_backup_ph)
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u = self.read_dataset(self.get_dataset_location('u_n' if mode.lower() == 'cell' else 'u_p'))
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v.add(u,'u')
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@ -58,7 +58,7 @@ class TestResult:
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f = default.get_dataset_location('F')
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assert a == b == c == d == e ==f
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@pytest.mark.parametrize('what',['increments','times','constituents']) # ToDo: discuss materialpoints
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@pytest.mark.parametrize('what',['increments','times','phases']) # ToDo: discuss homogenizations
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def test_pick_none(self,default,what):
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default.pick(what,False)
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a = default.get_dataset_location('F')
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@ -67,7 +67,7 @@ class TestResult:
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assert a == b == []
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@pytest.mark.parametrize('what',['increments','times','constituents']) # ToDo: discuss materialpoints
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@pytest.mark.parametrize('what',['increments','times','phases']) # ToDo: discuss homogenizations
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def test_pick_more(self,default,what):
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default.pick(what,False)
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default.pick_more(what,'*')
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@ -78,7 +78,7 @@ class TestResult:
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assert a == b
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@pytest.mark.parametrize('what',['increments','times','constituents']) # ToDo: discuss materialpoints
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@pytest.mark.parametrize('what',['increments','times','phases']) # ToDo: discuss homogenizations
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def test_pick_less(self,default,what):
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default.pick(what,True)
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default.pick_less(what,'*')
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@ -225,7 +225,7 @@ module subroutine damage_results
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do p = 1, size(material_name_phase)
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sourceLoop: do i = 1, phase_Nsources(p)
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group = trim('current/constituent')//'/'//trim(material_name_phase(p))
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group = trim('current/phase')//'/'//trim(material_name_phase(p))
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group = trim(group)//'/sources'
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call results_closeGroup(results_addGroup(group))
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@ -457,7 +457,7 @@ module subroutine plastic_results
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character(len=pStringLen) :: group
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plasticityLoop: do p=1,size(material_name_phase)
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group = trim('current/constituent')//'/'//trim(material_name_phase(p))
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group = trim('current/phase')//'/'//trim(material_name_phase(p))
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call results_closeGroup(results_addGroup(group))
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group = trim(group)//'/plastic'
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|
@ -739,7 +739,7 @@ subroutine crystallite_results
|
|||
character(len=:), allocatable :: group,structureLabel
|
||||
|
||||
do p=1,size(material_name_phase)
|
||||
group = trim('current/constituent')//'/'//trim(material_name_phase(p))//'/mechanics'
|
||||
group = trim('current/phase')//'/'//trim(material_name_phase(p))//'/mechanics'
|
||||
|
||||
call results_closeGroup(results_addGroup(group))
|
||||
|
||||
|
|
@ -772,11 +772,11 @@ subroutine crystallite_results
|
|||
case('P')
|
||||
selected_tensors = select_tensors(crystallite_P,p)
|
||||
call results_writeDataset(group,selected_tensors,output_constituent(p)%label(o),&
|
||||
'First Piola-Kirchoff stress','Pa')
|
||||
'First Piola-Kirchhoff stress','Pa')
|
||||
case('S')
|
||||
selected_tensors = select_tensors(crystallite_S,p)
|
||||
call results_writeDataset(group,selected_tensors,output_constituent(p)%label(o),&
|
||||
'Second Piola-Kirchoff stress','Pa')
|
||||
'Second Piola-Kirchhoff stress','Pa')
|
||||
case('O')
|
||||
select case(lattice_structure(p))
|
||||
case(lattice_ISO_ID)
|
||||
|
|
@ -1553,16 +1553,16 @@ subroutine crystallite_restartWrite
|
|||
call HDF5_write(fileHandle,crystallite_Li, 'L_i')
|
||||
call HDF5_write(fileHandle,crystallite_S, 'S')
|
||||
|
||||
groupHandle = HDF5_addGroup(fileHandle,'constituent')
|
||||
groupHandle = HDF5_addGroup(fileHandle,'phase')
|
||||
do i = 1,size(material_name_phase)
|
||||
write(datasetName,'(i0,a)') i,'_omega_plastic'
|
||||
write(datasetName,'(i0,a)') i,'_omega'
|
||||
call HDF5_write(groupHandle,plasticState(i)%state,datasetName)
|
||||
enddo
|
||||
call HDF5_closeGroup(groupHandle)
|
||||
|
||||
groupHandle = HDF5_addGroup(fileHandle,'materialpoint')
|
||||
groupHandle = HDF5_addGroup(fileHandle,'homogenization')
|
||||
do i = 1, size(material_name_homogenization)
|
||||
write(datasetName,'(i0,a)') i,'_omega_homogenization'
|
||||
write(datasetName,'(i0,a)') i,'_omega'
|
||||
call HDF5_write(groupHandle,homogState(i)%state,datasetName)
|
||||
enddo
|
||||
call HDF5_closeGroup(groupHandle)
|
||||
|
|
@ -1594,16 +1594,16 @@ subroutine crystallite_restartRead
|
|||
call HDF5_read(fileHandle,crystallite_Li0,'L_i')
|
||||
call HDF5_read(fileHandle,crystallite_S0, 'S')
|
||||
|
||||
groupHandle = HDF5_openGroup(fileHandle,'constituent')
|
||||
groupHandle = HDF5_openGroup(fileHandle,'phase')
|
||||
do i = 1,size(material_name_phase)
|
||||
write(datasetName,'(i0,a)') i,'_omega_plastic'
|
||||
write(datasetName,'(i0,a)') i,'_omega'
|
||||
call HDF5_read(groupHandle,plasticState(i)%state0,datasetName)
|
||||
enddo
|
||||
call HDF5_closeGroup(groupHandle)
|
||||
|
||||
groupHandle = HDF5_openGroup(fileHandle,'materialpoint')
|
||||
groupHandle = HDF5_openGroup(fileHandle,'homogenization')
|
||||
do i = 1,size(material_name_homogenization)
|
||||
write(datasetName,'(i0,a)') i,'_omega_homogenization'
|
||||
write(datasetName,'(i0,a)') i,'_omega'
|
||||
call HDF5_read(groupHandle,homogState(i)%state0,datasetName)
|
||||
enddo
|
||||
call HDF5_closeGroup(groupHandle)
|
||||
|
|
|
|||
|
|
@ -534,7 +534,7 @@ subroutine homogenization_results
|
|||
!real(pReal), dimension(:,:,:), allocatable :: temp
|
||||
|
||||
do p=1,size(material_name_homogenization)
|
||||
group_base = 'current/materialpoint/'//trim(material_name_homogenization(p))
|
||||
group_base = 'current/homogenization/'//trim(material_name_homogenization(p))
|
||||
call results_closeGroup(results_addGroup(group_base))
|
||||
|
||||
group = trim(group_base)//'/generic'
|
||||
|
|
|
|||
|
|
@ -395,12 +395,10 @@ function getKeys(dict)
|
|||
character(len=pStringLen), dimension(:), allocatable :: getKeys
|
||||
|
||||
integer :: i
|
||||
character(len=pStringLen) :: sectionName
|
||||
|
||||
allocate(getKeys(dict%length))
|
||||
do i=1, dict%length
|
||||
write(sectionName,'(i0,a)') i,'_'
|
||||
getKeys(i) = trim(adjustl(sectionName))//dict%getKey(i) !ToDo: remove prefix
|
||||
getKeys(i) = dict%getKey(i)
|
||||
enddo
|
||||
|
||||
end function getKeys
|
||||
|
|
|
|||
|
|
@ -74,12 +74,11 @@ subroutine results_init(restart)
|
|||
if(.not. restart) then
|
||||
resultsFile = HDF5_openFile(trim(getSolverJobName())//'.hdf5','w',.true.)
|
||||
call results_addAttribute('DADF5_version_major',0)
|
||||
call results_addAttribute('DADF5_version_minor',7)
|
||||
call results_addAttribute('DADF5_version_minor',8)
|
||||
call results_addAttribute('DAMASK_version',DAMASKVERSION)
|
||||
call get_command(commandLine)
|
||||
call results_addAttribute('call',trim(commandLine))
|
||||
call results_closeGroup(results_addGroup('mapping'))
|
||||
call results_closeGroup(results_addGroup('mapping/cellResults'))
|
||||
call results_closeJobFile
|
||||
endif
|
||||
|
||||
|
|
@ -122,12 +121,6 @@ subroutine results_addIncrement(inc,time)
|
|||
call results_closeGroup(results_addGroup('current/phase'))
|
||||
call results_closeGroup(results_addGroup('current/homogenization'))
|
||||
|
||||
! for backward compatibility
|
||||
call results_setLink(trim('/inc'//trim(adjustl(incChar)))//'/phase',&
|
||||
trim('/inc'//trim(adjustl(incChar)))//'/constituent')
|
||||
call results_setLink(trim('/inc'//trim(adjustl(incChar)))//'/homogenization',&
|
||||
trim('/inc'//trim(adjustl(incChar)))//'/materialpoint')
|
||||
|
||||
end subroutine results_addIncrement
|
||||
|
||||
|
||||
|
|
@ -656,9 +649,6 @@ subroutine results_mapping_constituent(phaseAt,memberAtLocal,label)
|
|||
if(hdferr < 0) error stop 'HDF5 error'
|
||||
call h5tclose_f(position_id, hdferr)
|
||||
|
||||
! for backward compatibility
|
||||
call results_setLink('/mapping/phase','/mapping/cellResults/constituent')
|
||||
|
||||
end subroutine results_mapping_constituent
|
||||
|
||||
|
||||
|
|
@ -814,9 +804,6 @@ subroutine results_mapping_homogenization(homogenizationAt,memberAtLocal,label)
|
|||
call h5tclose_f(position_id, hdferr)
|
||||
if(hdferr < 0) error stop 'HDF5 error'
|
||||
|
||||
! for backward compatibility
|
||||
call results_setLink('/mapping/homogenization','/mapping/cellResults/materialpoint')
|
||||
|
||||
end subroutine results_mapping_homogenization
|
||||
|
||||
|
||||
|
|
|
|||
Loading…
Reference in New Issue