spyglass

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Features to allow sharing of full pipeline and results for paper publication

22

I would like us to work toward a system that allows us to make the full set of pipelines and data files for a paper available publicly. We need to...

lfrank

Delete should prevent orphans in externals and `IntervalList`

2

After finding errors in my metadata file, I deleted the _.nwb file, raw data .nwb file under stelmo/nwb/raw, as well as the corresponding entry on the Nwbfile() table for the...

xlsun79

https://lorenfranklab.github.io/spyglass/latest/notebooks/00_Setup/#config-and-connecting-to-the-database "inserting data" link at bottom is broken.

magland

The function to determine the `fetch_nwb` calling table from the stack https://github.com/LorenFrankLab/spyglass/blob/e23d1fd8c69a114fe93cfd7094c6da714c7e6fa2/src/spyglass/utils/dj_helper_fn.py#L115-L132 finds multiple entries when using either of the following ```python LFPArtifactDetection().populate(key) LFPBandV1().populate(key) ``` This is not an issue...

CBroz1

A user reported that importing spyglass reset her Kachery zone, even when listed in the dj config In future versions, we will flag env vars as deprecated

CBroz1

Recompute method in computed tables

3

One of our main goals is to be able to share complete pipelines with results. Sharing of the various intermediate computed data outputs is one way to do this, but...

lfrank

State script file to unix timeframe

2

State script files are currently in trodes time frame. A user requested they migrate to unix timestamps

CBroz1

When bumping versions, local editable installs may reflect a previous version if the user only fetches commits, not tags. Docs for developers should indicate how to update the hatch-managed version....

CBroz1

Tutorial notebook demo database

2

**Is your feature request related to a problem? Please describe.** - When developers make changes to a tutorial notebook it sometimes requires re-running cells with updated functions, etc. to get...

samuelbray32

delete from `SpikeSortingOutput` exceeds max attempts

11

I get the below error when trying to delete from SortGroup. Code: ```python import spyglass.spikesorting.v0.spikesorting_recording as sgss (sgss.SortGroup & {'nwb_file_name': 'J1620210529_.nwb', 'sort_group_id': 100}).cautious_delete() ``` Error stack ```python --------------------------------------------------------------------------- KeyError Traceback...

sharon-chiang