Ryan Ly

Use and apply black formatting

4

## Motivation I added `black` to pre-commit so it will automatically modify the code to comply with black's uncompromising style guide. In this PR, I made some manual adjustments, particularly...

## Motivation Fix #794 - [ ] Add tests ## How to test the behavior? ``` Show how to reproduce the new behavior (can be a bug fix or a...

Modify dset/attr builders based on sidecar JSON

31

## Motivation Fix #676. This is DEMO code to demonstrate how HDMF might support the reading of file modifications from a sidecar JSON. I made up the formatting/schema of the...

Fix improperly set new vs overridden attributes

1

## Motivation Fix #447 . Fix bug in `BaseStorageSpec.resolve_spec` where attributes are not correctly removed from the set of new attributes. `__new_attributes` contains just the field names but `attribute` is...

Pass parent properties to extended dataset/attribute

1

Fix #320 `'dtype'`, `'shape'`, `'dims'` are passed to extended dataset if not specified `'shape'` and `'dims'` are passed to extended attribute if not specified I also added TODOs in the...

Fix bug on gettype on empty array, add validator tests

2

## Motivation Fix #317. Supersedes fix in #318. Closes #318. Adds a bunch of missing tests for validating the data type and shape of a dataset or attribute. Fix issue...

Add tests for #279. This is a work in progress.

[WIP] Add dimension scales/coordinates

2

Add dimension scales/coordinates to support direct association of datasets with dimensions of other datasets within a group. See https://github.com/NeurodataWithoutBorders/pynwb/issues/626 Very much a work in progress. I am also taking the...

Add container deepcopy

4

Fix #65 and adds generally useful functionality This adds a `Container.__deepcopy__ function` which: 1) resets the `parent` to None 2) resets the `container_source` to None 3) sets a new `object_id`...

Don't override col_cls in DynamicTable.add_column

2

## Motivation Issue: If a user extends `DynamicTableRegion` or `EnumData` and tries to create a column with that subclass, using the `table` or `enum` keyword args, their subclass argument gets...