Fixes bug which stops the selection read from actually occurring and …

…changes to actually using the filter pipeline. At this point is failling test_reference.

pyfive/__init__.py

@@ -3,5 +3,6 @@
 """
 
 from .high_level import File
+from .indexing import ZarrArrayStub, OrthogonalIndexer
 
 __version__ = '0.4.0.dev'

pyfive/dataobjects.py

@@ -741,7 +741,7 @@ def _get_chunk_addresses(self):
             for node in self.chunk_btree.all_nodes[0]:
                 for node_key, addr in zip(node['keys'], node['addresses']):
                     size = node_key['chunk_size']
-                    if self._filter_pipeline:
+                    if self.filter_pipeline:
                         # I am not sure this varies per chunk, but in case it does
                         filter_mask = node_key['filter_mask']
                     else:
@@ -768,7 +768,7 @@ def _get_selection_via_chunks(self, args):
         for chunk_coords, chunk_selection, out_selection in indexer:
             addr, chunk_buffer_size, filter_mask = self.get_chunk_details(chunk_coords) 
             chunk_buffer = self.chunk_btree.get_one_chunk_buffer(
-                addr, chunk_buffer_size, itemsize, self._filter_pipeline, filter_mask)
+                addr, chunk_buffer_size, itemsize, self.filter_pipeline, filter_mask)
             chunk_data = np.frombuffer(chunk_buffer, dtype=self.dtype)
             out[out_selection] = chunk_data.reshape(self.chunks, order=self.order)[chunk_selection]
 

pyfive/high_level.py

@@ -276,7 +276,7 @@ def __repr__(self):
         return '<HDF5 dataset "%s": shape %s, type "%s">' % info
 
     def __getitem__(self, args):
-        data = self._dataobjects.get_data()[args]
+        data = self._dataobjects.get_data(args)
         if self._astype is None:
             return data
         return data.astype(self._astype)