2.9.1

What's Changed

• deprecation warnings and documentation for spike sorting loading method
• bugfix: remove lru_cache on AllenAtlas class for iblviewer

EphysDLC task run on local servers

• Adding EphysDLC task in ephys_preprocessing pipeline
• NOTE: requires DLC environment to be set up on local servers!
• Fixes to EphysPostDLC dlc_qc_plot

QC Snapshots and SpikeSortingLoader

Release Notes 2.8.0 2022-01-19

• Add lfp, aprms, spike raster and behaviour report plots to task infastructure
• Computation of apRMS in decompress_destripe_cbin before conversion to normalised units
• Add SpikeSortingLoader class in brainbox.io.one

EphysPostDLC fixes

• Fixes and better logging for EphysPostDLC task

Report Snapshots

• New ReportSnapshot class
• DLC QC plots, as part of EphysPostDLC task
• BadChannelsAP plots for ephys QC
• Fix typo in camera extractor

Spike sorting updates and snapshot class

• Snapshot class to register images as notes in Alyx
• Ephys pipeline: RawEphysQC: outputs channels labels as part of pipeline
• Ephys pipeline: spike sorting
  • dsp.voltage: destripe detects bad channels and interpolate them
  • synchronisation 3B: gives a 10% leeway to throw exception
  • spikes sorting task outputs the RMS plot

PostDLC task and task statuses

• Adding PostDLC task to compute pupil diameters, licks and DLC QC
• Setting tasks to Waiting if they encountered lock (status -2)
• Setting tasks to Incomplete if they return status -3
• Completed tasks set held dependent tasks to waiting

2.3.0

• Add input and output signatures to all ephys tasks
• Add datahandler to task to download and upload data based on location where task is run
• Spike sorting and EphysVideoSyncQc download data on local servers if not available
• brainbox.io.one load_spike_sorting_fast: bugfix returns acronyms
• creates sequence files for spikesorting
• GPU tasks have a lock - local data handler doesn't instantiate one

Split jobs.py run in two

• Split jobs.py run function in two, one running large tasks (video compression, dlc, spike sorting), one the rest
• Ensure RawEphysQC runs both probes if one fails

Fixes for RawEphysQC and DlcQc

• Fix issue with RawEphysQC that was not looking in local Subjects folder for data
• Fix ensure_required_data in DlcQc