v0.4.6

v0.4.6

Back-compatability break

• Changed the metadata schema for Fluorescence and DfOverF where the traces metadata should be provided as a dict instead of a list of dicts. The name of the plane segmentation is used to determine which traces to add to the Fluorescence and DfOverF containers. PR #632

Features

• Added Pydantic data models of BackendConfiguration for both HDF5 and Zarr datasets (container/mapper of all the DatasetConfigurations for a particular file). PR #568
• Modify the filtering of traces to also filter out traces with empty values. PR #649
• Added tool function get_default_dataset_configurations for identifying and collecting all fields of an in-memory NWBFile that could become datasets on disk; and return instances of the Pydantic dataset models filled with default values for chunking/buffering/compression. PR #569
• Added tool function get_default_backend_configuration for conveniently packaging the results of get_default_dataset_configurations into an easy-to-modify mapping from locations of objects within the file to their correseponding dataset configuration options, as well as linking to a specific backend DataIO. PR #570
• Added set_probe() method to BaseRecordingExtractorInterface. PR #639

Fixes

• Fixed GenericDataChunkIterator (in hdmf.py) in the case where the number of dimensions is 1 and the size in bytes is greater than the threshold of 1 GB. PR #638
• Changed np.floor and np.prod usage to math.floor and math.prod in various files. PR #638
• Updated minimal required version of DANDI CLI; updated run_conversion_from_yaml API function and tests to be compatible with naming changes. PR #664

Improvements

• Change metadata extraction library from fparse to parse. PR #654
• The dandi CLI/API is now an optional dependency; it is still required to use the tool function for automated upload as well as the YAML-based NeuroConv CLI. PR #655