polished and added tests

python/damask/_result.py

@@ -1326,7 +1326,7 @@ class Result:
             v.save(f'{self.fname.stem}_inc{inc[ln:].zfill(N_digits)}')
 
 
-    def read(self,labels,compress=True,strip=True):
+    def read(self,output,compress=True,strip=True):
         """
         Export data from file per phase/homogenization.
 
@@ -1335,8 +1335,8 @@ class Result:
 
         Parameters
         ----------
-        labels : str or list of, optional
+        output : str or list of, optional
-            Labels of the datasets to be read.
+            Name of the datasets to include.
         compress : bool
             Squeeze out dictionaries that are not needed for a unique
             structure. This might be beneficial in the case of single
@@ -1348,22 +1348,22 @@ class Result:
 
         """
         r = {}
-        labels_ = set([labels] if isinstance(labels,str) else labels)
+        output_ = set([output] if isinstance(output,str) else output)
 
         with h5py.File(self.fname,'r') as f:
             for inc in util.show_progress(self.visible['increments']):
                 r[inc] = {'phase':{},'homogenization':{},'geometry':{}}
 
-                for la in labels_.intersection(f['/'.join((inc,'geometry'))].keys()):
+                for out in output_.intersection(f['/'.join((inc,'geometry'))].keys()):
-                    r[inc]['geometry'][la] = _read(f,'/'.join((inc,'geometry',la)))
+                    r[inc]['geometry'][out] = _read(f,'/'.join((inc,'geometry',out)))
 
                 for ty in ['phase','homogenization']:
-                    for na in self.visible[ty+'s']:
+                    for label in self.visible[ty+'s']:
-                        r[inc][ty][na] = {}
+                        r[inc][ty][label] = {}
-                        for field in f['/'.join((inc,ty,na))].keys():
+                        for field in f['/'.join((inc,ty,label))].keys():
-                            r[inc][ty][na][field] = {}
+                            r[inc][ty][label][field] = {}
-                            for la in labels_.intersection(f['/'.join((inc,ty,na,field))].keys()):
+                            for out in output_.intersection(f['/'.join((inc,ty,label,field))].keys()):
-                                r[inc][ty][na][field][la] = _read(f,'/'.join((inc,ty,na,field,la)))
+                                r[inc][ty][label][field][out] = _read(f,'/'.join((inc,ty,label,field,out)))
 
         if strip:    r = util.dict_strip(r)
         if compress: r = util.dict_compress(r)
@@ -1371,7 +1371,7 @@ class Result:
         return r
 
 
-    def place(self,labels,compress=True,strip=True,constituents=None,fill_float=0.0,fill_int=0):
+    def place(self,output,compress=True,strip=True,constituents=None,fill_float=0.0,fill_int=0):
         """
         Export data from file suitable sorted for spatial operations.
 
@@ -1384,7 +1384,7 @@ class Result:
 
         Parameters
         ----------
-        labels : str or list of, optional
+        output : str or list of, optional
             Labels of the datasets to be read.
         compress : bool
             Squeeze out dictionaries that are not needed for a unique
@@ -1403,16 +1403,17 @@ class Result:
         fill_int : int
             Fill value for non existent entries of integer type.
             Defaults to 0.
+
         """
         r = {}
 
-        labels_ = set([labels] if isinstance(labels,str) else labels)
+        output_ = set([output] if isinstance(output,str) else output)
         if constituents is None:
             constituents_ = range(self.N_constituents)
         else:
             constituents_ = constituents if isinstance(constituents,Iterable) else [constituents]
 
-        suffixes = [''] if self.N_constituents == 1 or len(constituents_) == 1 else \
+        suffixes = [''] if self.N_constituents == 1 or isinstance(constituents,int) else \
                    [f'#{c}' for c in constituents_]
 
         grp  = 'mapping' if self.version_minor < 12 else 'cell_to'
@@ -1423,10 +1424,10 @@ class Result:
 
             at_cell_ph = []
             in_data_ph = []
-            for c in constituents_:
+            for c in range(self.N_constituents):
                 at_cell_ph.append({label: np.where(f[os.path.join(grp,'phase')][:,c][name] == label.encode())[0] \
                                           for label in self.visible['phases']})
-                in_data_ph.append({label: f[os.path.join(grp,'phase')][member][at_cell_ph[c][label]][...,0] \
+                in_data_ph.append({label: f[os.path.join(grp,'phase')][member][at_cell_ph[c][label]][...,c] \
                                           for label in self.visible['phases']})
 
             at_cell_ho = {label: np.where(f[os.path.join(grp,'homogenization')][:][name] == label.encode())[0] \
@@ -1437,45 +1438,41 @@ class Result:
             for inc in util.show_progress(self.visible['increments']):
                 r[inc] = {'phase':{},'homogenization':{},'geometry':{}}
 
-                for la in labels_.intersection(f[os.path.join(inc,'geometry')].keys()):
+                for out in output_.intersection(f[os.path.join(inc,'geometry')].keys()):
-                    r[inc]['geometry'][la] = _read(f,os.path.join(inc,'geometry',la))
+                    r[inc]['geometry'][out] = _read(f,os.path.join(inc,'geometry',out))
 
-                for ph in self.visible['phases']:
+                for ty in ['phase','homogenization']:
-                    for field in f[os.path.join(inc,'phase',ph)].keys():
+                    for label in self.visible[ty+'s']:
-                        if field not in r[inc]['phase'].keys():
+                        for field in f[os.path.join(inc,ty,label)].keys():
-                            r[inc]['phase'][field] = {}
+                            if field not in r[inc][ty].keys():
+                                r[inc][ty][field] = {}
 
-                        for la in labels_.intersection(f[os.path.join(inc,'phase',ph,field)].keys()):
+                            for out in output_.intersection(f[os.path.join(inc,ty,label,field)].keys()):
-                            data = ma.array(_read(f,os.path.join(inc,'phase',ph,field,la)))
+                                data = ma.array(_read(f,os.path.join(inc,ty,label,field,out)))
 
-                            if la+suffixes[0] not in r[inc]['phase'][field].keys():
+                                if ty == 'phase':
+                                    if out+suffixes[0] not in r[inc][ty][field].keys():
                                         container = np.empty((self.N_materialpoints,)+data.shape[1:],dtype=data.dtype)
                                         fill_value = fill_float if data.dtype in np.sctypes['float'] else \
                                                      fill_int
                                         for c,suffix in zip(constituents_, suffixes):
-                                    r[inc]['phase'][field][la+suffix] = \
+                                            r[inc][ty][field][out+suffix] = \
                                                 ma.array(container,fill_value=fill_value,mask=True)
 
                                     for c,suffix in zip(constituents_, suffixes):
-                                r[inc]['phase'][field][la+suffix][at_cell_ph[c][ph]] = data[in_data_ph[c][ph]]
+                                        r[inc][ty][field][out+suffix][at_cell_ph[c][label]] = data[in_data_ph[c][label]]
 
-                for ho in self.visible['homogenizations']:
+                                if ty == 'homogenization':
-                    for field in f[os.path.join(inc,'homogenization',ho)].keys():
+                                    if out not in r[inc][ty][field].keys():
-                        if field not in r[inc]['homogenization'].keys():
-                            r[inc]['homogenization'][field] = {}
-
-                        for la in labels_.intersection(f[os.path.join(inc,'homogenization',ho,field)].keys()):
-                            data = ma.array(_read(f,os.path.join(inc,'homogenization',ho,field,la)))
-
-                            if la not in r[inc]['homogenization'][field].keys():
                                         container = np.empty((self.N_materialpoints,)+data.shape[1:],dtype=data.dtype)
                                         fill_value = fill_float if data.dtype in np.sctypes['float'] else \
                                                      fill_int
-                                r[inc]['homogenization'][field][la] = \
+                                        r[inc][ty][field][out] = \
                                             ma.array(container,fill_value=fill_value,mask=True)
 
-                            r[inc]['homogenization'][field][la][at_cell_ho[ho]] = data[in_data_ho[ho]]
+                                    r[inc][ty][field][out][at_cell_ho[label]] = data[in_data_ho[label]]
 
         if strip:    r = util.dict_strip(r)
         if compress: r = util.dict_compress(r)
+
         return r

python/tests/test_Result.py

@@ -401,7 +401,7 @@ class TestResult:
         with pytest.raises(TypeError):
             default.save_XDMF()
 
-    @pytest.mark.parametrize('view,labels,compress,strip',
+    @pytest.mark.parametrize('view,output,compress,strip',
             [({},['F','P','F','L_p','F_e','F_p'],True,True),
              ({'increments':3},'F',True,True),
              ({'increments':[1,8,3,4,5,6,7]},['F','P'],True,True),
@@ -411,18 +411,41 @@ class TestResult:
              ({'phases':False},['Delta_V'],True,True),
              ({},['u_p','u_n'],False,False)],
             ids=list(range(8)))
-    def test_read(self,update,request,ref_path,view,labels,compress,strip):
+    def test_read(self,update,request,ref_path,view,output,compress,strip):
         result = Result(ref_path/'4grains2x4x3_compressionY.hdf5')
         for key,value in view.items():
             result.view(key,value)
 
         N = request.node.name[8:].split('[')[1].split(']')[0]
-        cur = result.read(labels,compress,strip)
+        cur = result.read(output,compress,strip)
         if update:
             with bz2.BZ2File(ref_path/f'read_{N}.pbz2','w') as f:
                 pickle.dump(cur,f)
 
         with bz2.BZ2File(ref_path/f'read_{N}.pbz2') as f:
-            ref = pickle.load(f)
+            assert dict_equal(cur,pickle.load(f))
 
-        assert dict_equal(cur,ref)
+
+    @pytest.mark.parametrize('view,output,compress,constituents,strip',
+            [({},['F','P','F','L_p','F_e','F_p'],True,True,None),
+             ({'increments':3},'F',True,True,[0,1,2,3,4,5,6,7]),
+             ({'increments':[1,8,3,4,5,6,7]},['F','P'],True,True,1),
+             ({'phases':['A','B']},['F','P'],True,True,[1,2]),
+             ({'phases':['A','C'],'homogenizations':False},['F','P','O'],True,True,[0,7]),
+             ({'phases':False,'homogenizations':False},['F','P','O'],True,True,[1,2,3,4]),
+             ({'phases':False},['Delta_V'],True,True,[1,2,4]),
+             ({},['u_p','u_n'],False,False,None)],
+            ids=list(range(8)))
+    def test_place(self,update,request,ref_path,view,output,compress,strip,constituents):
+        result = Result(ref_path/'4grains2x4x3_compressionY.hdf5')
+        for key,value in view.items():
+            result.view(key,value)
+
+        N = request.node.name[8:].split('[')[1].split(']')[0]
+        cur = result.place(output,compress,strip,constituents)
+        if update:
+            with bz2.BZ2File(ref_path/f'place_{N}.pbz2','w') as f:
+                pickle.dump(cur,f)
+
+        with bz2.BZ2File(ref_path/f'place_{N}.pbz2') as f:
+            assert dict_equal(cur,pickle.load(f))