Collect results for AIND ephys pipeline

aind-ephys-results-collector

Description

This simple capsule is designed to collect the results for the AIND ecephys pipeline.

Inputs

The data/ folder can include several outputs from upstream capsules, including:

• outputs of the aind-ephys-preprocessing capsule
• outputs of the spike sorting capsule (either with aind-ephys-spikesort-pykilosort or aind-ephys-spikesort-kilosort25)
• outputs of the aind-ephys-postprocessing capsule
• outputs of the aind-ephys-curation capsule
• outputs of the aind-ephys-visualization capsule

In addition, the original session data (e.g., "ecephys_664438_2023-04-12_14-59-51") must also be available in the data/ folder.

Parameters

The code/run script takes no arguments.

Output

The output of this capsule in the results/ folder contains the following folders:

• preprocessed: collected JSON and motion folders files from preprocessing
• spikesorted: collected sorted folders from spike sorting
• postprocessed: collected postprocessed folders from postprocessing
• curated: collected curated folders from curation

In addition, the following JSON files are produced:

• visualization_output.json: collected visualization links from visualization
• data_description.json: DerivedDataDescription object from aind-data-schema package
• processing.json: Processing object from aind-data-schema package
• other JSON files, propagated from input data (including, subject.json, session.json, etc.)