DAMASK_EICMD/python/damask/dadf5.py

158 lines
6.1 KiB
Python

# -*- coding: UTF-8 no BOM -*-
import h5py
import re
import numpy as np
# ------------------------------------------------------------------
class DADF5():
"""Read and write to DADF5 files"""
# ------------------------------------------------------------------
def __init__(self,
filename,
mode = 'r',
):
if mode not in ['a','r']:
print('Invalid file access mode')
with h5py.File(filename,mode):
pass
with h5py.File(filename,'r') as f:
if f.attrs['DADF5-major'] != 0 or f.attrs['DADF5-minor'] != 2:
raise TypeError('Unsupported DADF5 version {} '.format(f.attrs['DADF5-version']))
self.structured = 'grid' in f['geometry'].attrs.keys()
if self.structured:
self.grid = f['geometry'].attrs['grid']
self.size = f['geometry'].attrs['size']
r=re.compile('inc[0-9]+')
self.increments = [{'inc': int(u[3:]),
'time': round(f[u].attrs['time/s'],12),
} for u in f.keys() if r.match(u)]
self.constituents = np.unique(f['mapping/cellResults/constituent']['Name']).tolist() # ToDo: I am not to happy with the name
self.constituents = [c.decode() for c in self.constituents]
self.materialpoints = np.unique(f['mapping/cellResults/materialpoint']['Name']).tolist() # ToDo: I am not to happy with the name
self.materialpoints = [m.decode() for m in self.materialpoints]
self.Nconstituents = [i for i in range(np.shape(f['mapping/cellResults/constituent'])[1])]
self.Nmaterialpoints = np.shape(f['mapping/cellResults/constituent'])[0]
self.c_output_types = []
for c in self.constituents:
for o in f['inc{:05}/constituent/{}'.format(self.increments[0]['inc'],c)].keys():
self.c_output_types.append(o)
self.c_output_types = list(set(self.c_output_types)) # make unique
self.m_output_types = []
for m in self.materialpoints:
for o in f['inc{:05}/materialpoint/{}'.format(self.increments[0]['inc'],m)].keys():
self.m_output_types.append(o)
self.m_output_types = list(set(self.m_output_types)) # make unique
self.active= {'increments': self.increments,
'constituents': self.constituents,
'materialpoints': self.materialpoints,
'constituent': self.Nconstituents,
'c_output_types': self.c_output_types,
'm_output_types': self.m_output_types}
self.filename = filename
self.mode = mode
def list_data(self):
"""Shows information on all datasets in the file"""
with h5py.File(self.filename,'r') as f:
group_inc = 'inc{:05}'.format(self.active['increments'][0]['inc'])
for c in self.active['constituents']:
print('\n'+c)
group_constituent = group_inc+'/constituent/'+c
for t in self.active['c_output_types']:
print(' {}'.format(t))
group_output_types = group_constituent+'/'+t
try:
for x in f[group_output_types].keys():
print(' {} ({})'.format(x,f[group_output_types+'/'+x].attrs['Description'].decode()))
except:
pass
for m in self.active['materialpoints']:
group_materialpoint = group_inc+'/materialpoint/'+m
for t in self.active['m_output_types']:
print(' {}'.format(t))
group_output_types = group_materialpoint+'/'+t
try:
for x in f[group_output_types].keys():
print(' {} ({})'.format(x,f[group_output_types+'/'+x].attrs['Description'].decode()))
except:
pass
def get_dataset_location(self,label):
"""Returns the location of all active datasets with given label"""
path = []
with h5py.File(self.filename,'r') as f:
for i in self.active['increments']:
group_inc = 'inc{:05}'.format(i['inc'])
for c in self.active['constituents']:
group_constituent = group_inc+'/constituent/'+c
for t in self.active['c_output_types']:
try:
f[group_constituent+'/'+t+'/'+label]
path.append(group_constituent+'/'+t+'/'+label)
except Exception as e:
print('unable to locate constituents dataset: '+ str(e))
for m in []: #self.active['materialpoints']:
group_materialpoint = group_inc+'/materialpoint/'+m
for t in self.active['m_output_types']:
try:
f[group_materialpoint+'/'+t+'/'+label]
path.append(group_materialpoint+'/'+t+'/'+label)
except Exception as e:
print('unable to locate materialpoints dataset: '+ str(e))
return path
def read_dataset(self,path,c):
"""
Dataset for all points/cells
If more than one path is given, the dataset is composed of the individual contributions
"""
with h5py.File(self.filename,'r') as f:
shape = (self.Nmaterialpoints,) + np.shape(f[path[0]])[1:]
if len(shape) == 1: shape = shape +(1,)
dataset = np.full(shape,np.nan)
for pa in path:
label = pa.split('/')[2]
try:
p = np.where(f['mapping/cellResults/constituent'][:,c]['Name'] == str.encode(label))[0]
u = (f['mapping/cellResults/constituent'][p,c]['Position'])
a = np.array(f[pa])
if len(a.shape) == 1:
a=a.reshape([a.shape[0],1])
dataset[p,:] = a[u,:]
except Exception as e:
print('unable to read constituent: '+ str(e))
try:
p = np.where(f['mapping/cellResults/materialpoint']['Name'] == str.encode(label))[0]
u = (f['mapping/cellResults/materialpoint'][p.tolist()]['Position'])
a = np.array(f[pa])
if len(a.shape) == 1:
a=a.reshape([a.shape[0],1])
dataset[p,:] = a[u,:]
except Exception as e:
print('unable to read materialpoint: '+ str(e))
return dataset