v0.5.4

What's Changed

• Set VisualIndicators to False in LicketySplit by @bruno-f-cruz in badea77

Full Changelog: v0.5.3...v0.5.4

v0.5.3

What's Changed

• Replace HarpBehavior for HarpWhiteRabbit as the source of software timestamping by @bruno-f-cruz in #343

Full Changelog: v0.5.2...v0.5.3

v0.5.2

What's Changed

• Add flag to delete data after successful upload by @bruno-f-cruz in #341

Full Changelog: v0.5.0...v0.5.2

v0.5.1

Caution

Breaking changes:

• Rig and Task Logic schemas
• Datasets (schemas are now saved in the Behavior folder since sci comp does not support folders with names that do not correspond to modalities)

Note

Aind Rig mapper:
We will use the following rule:
Given a aind_behavior_services rig schema, we will use the rig_name property to try to find a corresponding <rig_name>.json file that will be attached to the session once data collection completes. The contents of this file will not be changed aside from a (de)serialization loop to validate it via aind-data-schemas

What's Changed

• Update treadmill interface package version by @bruno-f-cruz in #282
• Ensure initial state of treadmill brake is set by @bruno-f-cruz in #285
• Feat allow arbitrary patch depletion statistics by @bruno-f-cruz in #288
• Add treadmill lookup table to workflow by @bruno-f-cruz in #295
• Add block structure to main workflow by @bruno-f-cruz in #299
• Update launcher architecture and add aind data mappers by @bruno-f-cruz in #309
• Add camera stream visualizers by @bruno-f-cruz in #314
• Set Spinnaker AdcBitDepth and PixelFormat from schema by @bruno-f-cruz in #315
• Add support of uv package manager by @bruno-f-cruz in #317
• Ensure ManipulatorPosition is set in a thread-safe context by @bruno-f-cruz in #318
• Use common actions repository by @bruno-f-cruz in #321
• Make task name literal by @bruno-f-cruz in #322
• v0.5.0 release by @bruno-f-cruz in #289
• Increase water valve flush time limit to 1min by @bruno-f-cruz in #325
• Upgrade aind-behavior-services to 0.10 by @bruno-f-cruz in #326
• Expose watchdog job settings in launcher by @bruno-f-cruz in #332
• Update launcher dependencies to v0.4 by @bruno-f-cruz in #334
• Explicitly run the CLI application by @bruno-f-cruz in #336
• Output harp device metadata at logging time by @bruno-f-cruz in #335

Full Changelog: v0.4.3...v0.5.1

v0.4.3

What's Changed

• Fix treadmill interpolator by @bruno-f-cruz in #305

Full Changelog: v0.4.2...v0.4.3

v0.4.2

What's Changed

• Defer assertation of treadmill state until experiment starts by @bruno-f-cruz in #300

Full Changelog: v0.4.1...v0.4.2

v0.4.1

What's Changed

• Ensure stops are only trigger site logic from within the site by @bruno-f-cruz in #298

Full Changelog: v0.4.0...v0.4.1

v0.4.0

What's Changed

• Refactor logging to follow latest harp standard by @bruno-f-cruz in #239
• Implement ffmpeg logging by @bruno-f-cruz in #240
• Adopt new launcher to automatically perform animal <-> task association by @bruno-f-cruz in #241
• Add docs by @bruno-f-cruz in #243
• Update Behavior.Services to 0.7.0 by @bruno-f-cruz in #245
• Implement display color adjustment by @bruno-f-cruz in #248
• Implement patch flanking sites by @bruno-f-cruz in #253
• Implement treadmill brake control by @bruno-f-cruz in #254
• Add bonsai deserialization tests by @bruno-f-cruz in #255
• Fix typo by @bruno-f-cruz in #258
• Bruno-f-cruz/issue257 by @bruno-f-cruz in #259
• Feat-add-repeater-to-rig-schema by @bruno-f-cruz in #261
• Add AindManipulator to workflow by @bruno-f-cruz in #262
• Update to latest core dependencies by @bruno-f-cruz in #268
• Adding CI github action for ruff linting and unit testing by @bruno-f-cruz in #273
• Update index.rst to include home and source code by @bruno-f-cruz in #276
• Account for treadmill potential aperiodic sampling rate by @bruno-f-cruz in #275
• [Release] v0.4.0 by @bruno-f-cruz in #242
• Update aind-core to fix nullable reference on CreateSoftwareEvents by @bruno-f-cruz in #290

Full Changelog: v0.3.0...v0.4.0

v0.4.0-rc2

What's Changed

• Update aind-core to fix nullable reference on CreateSoftwareEvents by @bruno-f-cruz in #290

Full Changelog: v0.4.0-rc1...v0.4.0-rc2

v0.4.0-rc1

What's Changed

• Refactor logging to follow latest harp standard by @bruno-f-cruz in #239
• Implement ffmpeg logging by @bruno-f-cruz in #240
• Adopt new launcher to automatically perform animal <-> task association by @bruno-f-cruz in #241
• Add docs by @bruno-f-cruz in #243
• Update Behavior.Services to 0.7.0 by @bruno-f-cruz in #245
• Implement display color adjustment by @bruno-f-cruz in #248
• Implement patch flanking sites by @bruno-f-cruz in #253
• Implement treadmill brake control by @bruno-f-cruz in #254
• Add bonsai deserialization tests by @bruno-f-cruz in #255
• Fix typo by @bruno-f-cruz in #258
• Bruno-f-cruz/issue257 by @bruno-f-cruz in #259
• Feat-add-repeater-to-rig-schema by @bruno-f-cruz in #261
• Add AindManipulator to workflow by @bruno-f-cruz in #262
• Update to latest core dependencies by @bruno-f-cruz in #268
• Adding CI github action for ruff linting and unit testing by @bruno-f-cruz in #273
• Update index.rst to include home and source code by @bruno-f-cruz in #276
• Account for treadmill potential aperiodic sampling rate by @bruno-f-cruz in #275
• [Release] v0.4.0 by @bruno-f-cruz in #242

Full Changelog: v0.3.0...v0.4.0

Additional details:

• Updates Bonsai to 2.8.5
• Adds breaking changes to the TaskLogic, Rig, and Session schemas. Make sure that these are updated to the most recent version. See the ./examples/examples.py
• Adds a way to configure a small database-like document to drive associations between subjects and task logic (closes #237 )
• Refactors workflow to use logging by modality (closes #234)
• Refactors workflow to adopt the new schemas from https://github.com/AllenNeuralDynamics/Aind.Behavior.Services/releases/tag/0.7.11
• Refactors workflow to use the latest harp logging standard (closes #136 and #233 ) and removes now unused legacy operators
• Implements ffmpeg-powered video encoding (closes #235 )
• Implements new camera control and logging (procedurally generated)
• Align video logging format with latest AIND behavior agreed upon standards
• Docs deployment
• Moves several operators to Aind.Core package
• Add infrastructure necessary for data-mapper
• Removes legacy scripting python folder from the root of the repository. Remove corresponding Analysis requirements from project.toml
• Adds an online QC routine that checks if the difference between frame times reported by the camera matches the one reported by the triggers. Essentially implements an online quality check for dropped frames, non-exposed frames and, in some cases, trigger misalignment. Note, this warning will likely be triggered during the session if the synchronization bug is triggered. (closes #224)
• Patches are now bilaterally flanked by two inter-patch regions InterPatch and PostPatch
• Deprecates Aind.Core.Design UI elements in favor of Bonsai.GUI (closes #216)
• Deprecates Bonsai.Visualizer plotting in favor of Bonsai.GUI (closes #216 )
• Drops support for the old treadmill reading (using the behavior board) and now only supports the new Harp Treadmill developed in-house. (closes #207)
• Adds support for each site defining its own treadmill break value.
• Add support for null reward specification logic in reward sites
• Adds support for the new AIND manipulator (closes #249)
• New tests for bonsai schema deserializers
• Adds clock generator repeater to the workflow (closes #250)
• Updates definition of TransitionMatrix and InitialState. The initial state is now an array that is used to draw the first state from a set of probabilities. (Closes #272 )