Prepare 5.0.0 release (#1402)

Author: rly

CHANGELOG.md

@@ -1,6 +1,6 @@
 # HDMF Changelog
 
-## HDMF 5.0.0 (Upcoming)
+## HDMF 5.0.0 (March 2, 2026)
 
 ### Changed
 - Refactored `TypeMap.load_namespaces` to register `TypeSource` placeholders for both source types and dependent types, enabling lazy class generation. Added `NamespaceCatalog.get_source_types` to get source types loaded for a namespace. Removed `TypeMap.container_types` property. Converted `TypeSource` to a frozen dataclass. @rly [#1372](https://github.com/hdmf-dev/hdmf/pull/1372)

src/hdmf/backends/io.py

@@ -12,12 +12,6 @@
 
 class HDMFIO(metaclass=ABCMeta):
 
-    @staticmethod
-    @abstractmethod
-    def can_read(path):
-        """Determines whether a given path is readable by this HDMFIO class"""
-        pass
-
     @docval({'name': 'manager', 'type': BuildManager,
              'doc': 'the BuildManager to use for I/O', 'default': None},
             {"name": "source", "type": (str, Path),
@@ -35,7 +29,6 @@ def __init__(self, **kwargs):
             source = os.path.abspath(source)
 
         self.__manager = manager
-        self.__built = dict()
         self.__source = source
         self.herd_path = herd_path
         self.herd = None
@@ -189,6 +182,12 @@ def close(self):
         ''' Close this HDMFIO object to further reading/writing'''
         pass
 
+    @staticmethod
+    @abstractmethod
+    def can_read(path):
+        """Determines whether a given path is readable by this HDMFIO class"""
+        pass
+
     @classmethod
     @abstractmethod
     def load_namespaces(cls,

src/hdmf/build/manager.py

@@ -463,7 +463,7 @@ def __deepcopy__(self, memo):
 
     def copy_mappers(self, type_map):
         warnings.warn(
-            "copy_mappers is deprecated and will be removed in a future version. "
+            "copy_mappers is deprecated and will be removed in HDMF 6.0. "
             "Use merge instead with the argument ns_catalog=False to copy only mappers without namespaces.",
             DeprecationWarning,
         )

tests/unit/test_io_hdf5_h5tools.py

@@ -3646,7 +3646,7 @@ def tearDown(self):
 
     def test_roundtrip_basic(self):
         # Setup all the data we need
-        zarr.save(self.zarr_path, np.arange(50).reshape(5, 10))
+        zarr.save(self.zarr_path, np.arange(50))
         zarr_data = zarr.open(self.zarr_path, 'r')
         foo1 = Foo(name='foo1',
                    my_data=zarr_data,
@@ -3679,7 +3679,7 @@ def test_roundtrip_empty_dataset(self):
             self.assertListEqual([], read_foofile.buckets['bucket1'].foos['foo1'].my_data[:].tolist())
 
     def test_write_zarr_int32_dataset(self):
-        base_data = np.arange(50).reshape(5, 10).astype('int32')
+        base_data = np.arange(50).astype('int32')
         zarr.save(self.zarr_path, base_data)
         zarr_data = zarr.open(self.zarr_path, 'r')
         io = HDF5IO(self.path, mode='a')
@@ -3693,7 +3693,7 @@ def test_write_zarr_int32_dataset(self):
                              base_data.tolist())
 
     def test_write_zarr_float32_dataset(self):
-        base_data = np.arange(50).reshape(5, 10).astype('float32')
+        base_data = np.arange(50).astype('float32')
         zarr.save(self.zarr_path, base_data)
         zarr_data = zarr.open(self.zarr_path, 'r')
         io = HDF5IO(self.path, mode='a')
@@ -3823,7 +3823,7 @@ def test_write_zarr_vlen_ascii_dataset(self):
         np.testing.assert_array_equal(dset[:].astype(bytes), zarr_data[:])
 
     def test_write_zarr_dataset_compress_gzip(self):
-        base_data = np.arange(50).reshape(5, 10).astype('float32')
+        base_data = np.arange(50).astype('float32')
         zarr.save(self.zarr_path, base_data)
         zarr_data = zarr.open(self.zarr_path, 'r')
         a = H5DataIO(zarr_data,