Code

Develop#685

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k1o0 merged 97 commits intomasterint-brain-lab/ibllib:masterfrom developint-brain-lab/ibllib:developCopy head branch name to clipboardDec 13, 2023

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Commits

Commits on Aug 30, 2023

• Deprecate globus module

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Commits on Sep 6, 2023

• Use ONE Globus in patcher

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• Add delete_dataset method

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Commits on Sep 11, 2023

• Delete S3 files

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Commits on Sep 15, 2023

• Bump ONE version

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Commits on Sep 25, 2023

• full session wheel alignment

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• Merge branch 'release/2.26' into develop

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Commits on Sep 26, 2023

• Merge branch 'develop' into globusDeprecation

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• add video wheel alignment to fpga camera extraction

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• report server health to data repo not lab

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• circular imports

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• Merge branch 'develop' into wheel_alignment

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Commits on Sep 27, 2023

• upload plot to alyx

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• remove circular imports

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Commits on Oct 4, 2023

• Density gain option (#652)

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Commits on Oct 6, 2023

• doc probe geometry

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• sync extension optional; reduce logging clutter

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• flake8

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• Task qc extractor refactor (#649)

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• Merge branch 'develop' into globusDeprecation

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Commits on Oct 9, 2023

• Merge branch 'develop' into wheel_alignment

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Commits on Oct 10, 2023

• remove behavior flag, infer from files

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• restrict to left and right cameras

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• fix glob pattern

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• authenticate alyx

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• Merge pull request #651 from int-brain-lab/wheel_alignment

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• save figure with label name

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Commits on Oct 11, 2023

• Merge remote-tracking branch 'origin/develop' into docs

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• close figure and change processes

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• doc strings to wheel alignment module

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• Mesoscope brain location (#656)

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• Merge branch 'master' into develop

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• change nprocess

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• Merge branch 'develop' into wheel_alignment

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• Merge pull request #661 from int-brain-lab/wheel_alignment

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Commits on Oct 12, 2023

• better logging and release notes

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• Merge pull request #662 from int-brain-lab/wheel_alignment

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Commits on Oct 17, 2023

• Move url2uri to ONE

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Commits on Oct 18, 2023

• Merge remote-tracking branch 'origin/develop' into docs

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• mpciROIs.uuids (#663)

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• raw audio spectrogram example

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• Merge branch 'develop' into globusDeprecation

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• fix from brainbox.io.one import load_channel_locations

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Commits on Oct 19, 2023

• fix the docs

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Commits on Oct 23, 2023

• Test GlobusPatcher

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• Merge branch 'develop' into globusDeprecation

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• Moved Mayo's examples to tasks.py module

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• Merge branch 'globusDeprecation' of https://github.com/int-brain-lab/ibllib into globusDeprecation

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• Ensure paths are str in GlobusPatcher; ignore tmin, tmax if no trials start pulses detected

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Commits on Oct 24, 2023

• remove deprecated psychofit module; fix tests

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• doc raw data probe geometry

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• local coordinates not existing as a key

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• Merge pull request #660 from int-brain-lab/docs

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Commits on Oct 25, 2023

• Add device_sound key to v7 settings; QC bugfix and test

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• sdsc load data possible by monkey patching alfio in brainbox.io.one

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• Merge pull request #664 from int-brain-lab/uuidFilenames

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Commits on Nov 2, 2023

• bump ONE version

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Commits on Nov 3, 2023

• use packaging instead of pkg_resources; use IBLRIG_VERSION instead of IBLRIG_VERSION_TAG; soundcard task QC thresholds; change to check_stimulus_move_before_goCue

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Commits on Nov 6, 2023

• QC notes and test fix

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• Extend globus module deprecation

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Commits on Nov 15, 2023

• Issue #666

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Commits on Nov 23, 2023

• FpgaTrials refactor and FpgaHabituationTrials subclass

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Commits on Nov 28, 2023

• Auto stash before merge of "develop" and "origin/develop"

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• training status to run on SDSC

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Commits on Nov 30, 2023

• training status - only extract bpod data, don't run qc and don't sync

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Commits on Dec 5, 2023

• Remove test reference to module constant

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Commits on Dec 6, 2023

• when no spacer take last ttl as end time

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• improve logging

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Commits on Dec 8, 2023

• mesoscope trials extractor refactor; fix attribute_times numpy version bug; FpgaTrials.build_trials method call after sync

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• Build trials after syncing Bpod clock

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• Include wheel in Bpod trials dict passed to FpgaTrials

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• Add more fields to qc extractor

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• Merge pull request #673 from int-brain-lab/HabituationNidq

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Commits on Dec 11, 2023

• Merge branch 'probe_plot_fix' into passive_fix

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• Merge branch 'develop' into passive_fix

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• Merge branch 'develop' into TrainingTaskQC

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• flake

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• Merge pull request #681 from int-brain-lab/passive_fix

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• Merge branch 'develop' into globusDeprecation

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• Merge branch 'develop' into globusDeprecation

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• Skip phase distribution check; handle NaNs in stim move before go cue

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• use get_bpod_event_times

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• Merge pull request #665 from int-brain-lab/TrainingTaskQC

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Commits on Dec 12, 2023

• Increase default protocol period

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• Merge branch 'develop' into globusDeprecation

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• Test new extractor methods

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• Move test_ephys_trials tests to test_ephys_fpga; remove old functions

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• Added trainingPhaseChoiceWorld to task protocol extractor map; fix typo in ephysqc

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• remove prepare_experiment

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• Merge pull request #647 from int-brain-lab/globusDeprecation

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Commits on Dec 13, 2023

• Merge pull request #684 from int-brain-lab/removeOldFunctions

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• Release notes

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• randomise session for histology

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• randomise all seeds

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• Merge pull request #687 from int-brain-lab/random_sessions_for_tests

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• Update release notes; remove unused time date range function

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• Remove double import; delete session notes first on teardown

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