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Merge branch 'regrid-result' into 'development' 

regrid/map when exporting DADF5

See merge request damask/DAMASK!748
This commit is contained in:
Sharan Roongta 2023-04-14 20:05:30 +00:00
parent ac6d754a87 d2e85ef15b
commit 7b158f5ec4
3 changed files with 63 additions and 10 deletions
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2
python/damask/_grid.py
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@ -1044,7 +1044,7 @@ class Grid:
Parameters
----------
idx : numpy.ndarray of int, shape (:,:,:) or (:,:,:,3)
Grid of flat indices or coordinate indices.
Grid of flat indices or coordinate indices.
Returns
-------

56
python/damask/_result.py
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@ -1927,7 +1927,8 @@ class Result:
def export_DADF5(self,
fname,
output: Union[str, List[str]] = '*'):
output: Union[str, List[str]] = '*',
mapping = None):
"""
Export visible components into a new DADF5 file.
@ -1941,20 +1942,61 @@ class Result:
output : (list of) str, optional
Names of the datasets to export.
Defaults to '*', in which case all visible datasets are exported.
mapping : numpy.ndarray of int, shape (:,:,:), optional
Indices for regridding.
"""
if Path(fname).expanduser().absolute() == self.fname:
raise PermissionError(f'cannot overwrite {self.fname}')
def cp(path_in,path_out,label,mapping):
if mapping is None:
path_in.copy(label,path_out)
else:
path_out.create_dataset(label,data=path_in[label][()][mapping])
path_out[label].attrs.update(path_in[label].attrs)
with h5py.File(self.fname,'r') as f_in, h5py.File(fname,'w') as f_out:
for k,v in f_in.attrs.items():
f_out.attrs.create(k,v)
for g in ['setup','geometry','cell_to']:
f_out.attrs.update(f_in.attrs)
for g in ['setup','geometry'] + (['cell_to'] if mapping is None else []):
f_in.copy(g,f_out)
if mapping is not None:
cells = mapping.shape
mapping_flat = mapping.flatten(order='F')
f_out['geometry'].attrs['cells'] = cells
f_out.create_group('cell_to') # ToDo: attribute missing
mappings = {'phase':{},'homogenization':{}} # type: ignore
mapping_phase = f_in['cell_to']['phase'][()][mapping_flat]
for p in np.unique(mapping_phase['label']):
m = mapping_phase['label'] == p
mappings['phase'][p] = mapping_phase[m]['entry']
c = np.count_nonzero(m)
mapping_phase[m] = list(zip((p,)*c,tuple(np.arange(c))))
f_out['cell_to'].create_dataset('phase',data=mapping_phase.reshape(np.prod(mapping_flat.shape),-1))
mapping_homog = f_in['cell_to']['homogenization'][()][mapping]
for h in np.unique(mapping_homog['label']):
m = mapping_homog['label'] == h
mappings['homogenization'][h] = mapping_homog[m]['entry']
c = np.count_nonzero(m)
mapping_homog[mapping_homog['label'] == h] = list(zip((h,)*c,tuple(np.arange(c))))
f_out['cell_to'].create_dataset('homogenization',data=mapping_homog.flatten())
for inc in util.show_progress(self.visible['increments']):
f_in.copy(inc,f_out,shallow=True)
for out in _match(output,f_in['/'.join([inc,'geometry'])].keys()):
f_in[inc]['geometry'].copy(out,f_out[inc]['geometry'])
if mapping is None:
for label in ['u_p','u_n']:
f_in[inc]['geometry'].copy(label,f_out[inc]['geometry'])
else:
u_p = f_in[inc]['geometry']['u_p'][()][mapping_flat]
f_out[inc]['geometry'].create_dataset('u_p',data=u_p)
u_n = np.zeros((len(mapping_flat),3)) # ToDo: needs implementation
f_out[inc]['geometry'].create_dataset('u_n',data=u_n)
for label in self.homogenizations:
f_in[inc]['homogenization'].copy(label,f_out[inc]['homogenization'],shallow=True)
@ -1966,7 +2008,7 @@ class Result:
for field in _match(self.visible['fields'],f_in['/'.join([inc,ty,label])].keys()):
p = '/'.join([inc,ty,label,field])
for out in _match(output,f_in[p].keys()):
f_in[p].copy(out,f_out[p])
cp(f_in[p],f_out[p],out,None if mapping is None else mappings[ty][label.encode()])
def export_simulation_setup(self,

15
python/tests/test_Result.py
View File

@ -603,11 +603,13 @@ class TestResult:
assert 'material.yaml' in os.listdir(absdir); (absdir/'material.yaml').unlink()
@pytest.mark.parametrize('fname',['4grains2x4x3_compressionY.hdf5',
'6grains6x7x8_single_phase_tensionY.hdf5'])
'6grains6x7x8_single_phase_tensionY.hdf5',
'12grains6x7x8_tensionY.hdf5',
'check_compile_job1.hdf5',])
def test_export_DADF5(self,ref_path,tmp_path,fname):
r = Result(ref_path/fname)
r = r.view(phases = random.sample(r.phases,1))
r = r.view(increments = random.sample(r.increments,np.random.randint(2,len(r.increments))))
r = r.view(increments = random.sample(r.increments,np.random.randint(1,len(r.increments))))
r.export_DADF5(tmp_path/fname)
r_exp = Result(tmp_path/fname)
assert str(r.get()) == str(r_exp.get())
@ -619,3 +621,12 @@ class TestResult:
r = Result(ref_path/fname)
with pytest.raises(PermissionError):
r.export_DADF5(r.fname)
@pytest.mark.parametrize('fname',['4grains2x4x3_compressionY.hdf5',
'6grains6x7x8_single_phase_tensionY.hdf5',
'12grains6x7x8_tensionY.hdf5'])
def test_export_DADF5_regrid(self,ref_path,tmp_path,fname):
r = Result(ref_path/fname)
m = grid_filters.regrid(r.size,np.broadcast_to(np.eye(3),tuple(r.cells)+(3,3)),r.cells*2)
r.export_DADF5(tmp_path/'regridded.hdf5',mapping=m)
assert np.all(Result(tmp_path/'regridded.hdf5').cells == r.cells*2)