Merge branch 'dev' into herd_update

.github/workflows/check_external_links.yml

@@ -19,7 +19,7 @@ jobs:
           fetch-depth: 0  # tags are required to determine the version
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: '3.11'  # TODO update to 3.12 when optional reqs (e.g., oaklib) support 3.12
 

.github/workflows/deploy_release.yml

@@ -16,7 +16,7 @@ jobs:
           fetch-depth: 0  # tags are required for versioneer to determine the version
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: '3.12'
 

.github/workflows/run_all_tests.yml

@@ -57,7 +57,7 @@ jobs:
           fetch-depth: 0  # tags are required to determine the version
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: ${{ matrix.python-ver }}
 
@@ -117,7 +117,7 @@ jobs:
           fetch-depth: 0  # tags are required to determine the version
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: ${{ matrix.python-ver }}
 

.github/workflows/run_coverage.yml

@@ -40,7 +40,7 @@ jobs:
           fetch-depth: 0  # tags are required to determine the version
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: ${{ env.PYTHON }}
 

.github/workflows/run_hdmf_zarr_tests.yml

@@ -19,7 +19,7 @@ jobs:
           fetch-depth: 0  # tags are required to determine the version
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: '3.10'  # use 3.10 until hdmf-zarr updates versioneer.py which breaks on newer python
 

.github/workflows/run_pynwb_tests.yml

@@ -19,7 +19,7 @@ jobs:
           fetch-depth: 0  # tags are required to determine the version
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: '3.12'
 

.github/workflows/run_tests.yml

@@ -38,7 +38,7 @@ jobs:
           fetch-depth: 0  # tags are required to determine the version
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: ${{ matrix.python-ver }}
 
@@ -97,7 +97,7 @@ jobs:
           fetch-depth: 0  # tags are required to determine the version
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: ${{ matrix.python-ver }}
 
@@ -184,7 +184,7 @@ jobs:
           fetch-depth: 0  # tags are required to determine the version
 
       - name: Set up Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: '3.12'
 

src/hdmf/container.py

@@ -2,6 +2,7 @@
 from abc import abstractmethod
 from collections import OrderedDict
 from copy import deepcopy
+from typing import Type
 from uuid import uuid4
 from warnings import warn
 
@@ -746,7 +747,18 @@ def __smart_str_dict(d, num_indent):
         out += '\n' + indent + right_br
         return out
 
-    def set_data_io(self, dataset_name, data_io_class, **kwargs):
+    def set_data_io(self, dataset_name: str, data_io_class: Type[DataIO], **kwargs) -> None:
+        """
+
+        Parameters
+        ----------
+        dataset_name: str
+            Name of dataset to wrap in DataIO
+        data_io_class: Type[DataIO]
+            Class to use for DataIO, e.g. H5DataIO or ZarrDataIO
+        **kwargs:
+            kwargs are passed to the constructor of the DataIO class
+        """
         data = self.fields.get(dataset_name)
         if data is None:
             raise ValueError(f"{dataset_name} is None and cannot be wrapped in a DataIO class")