Code

Photometry integration#938

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grg2rsr wants to merge 56 commits intomasterint-brain-lab/ibllib:masterfrom photometry-integrationint-brain-lab/ibllib:photometry-integrationCopy head branch name to clipboard

+435-285

Commits

Commits on Dec 18, 2024

• Merge branch 'release/3.2.0' into develop

  mayofaulkner

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  7295c07

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• add motion energy to LP task

  themattinthehatt

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  4d208b4

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• bugfix

  themattinthehatt

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  178e0f9

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• remove unnecessary comments

  themattinthehatt

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• flake

  themattinthehatt

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Commits on Dec 21, 2024

• allow none labels in plot insertions

  oliche

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• rename spike sorting log

  oliche

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• spike sorting log in alf collection for task signature

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Commits on Dec 31, 2024

• add waveform datasets to the spike sorting task signature

  oliche

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• spike sorting loader default switched to iblsorter

  oliche

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• remove temporary folder before waveform extraction to clear some space

  oliche

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• add iblsorter log to the alf folder

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Commits on Jan 1, 2025

• on GPU lock found, raise if task mode is set to raise

  oliche

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• patcher: add context to registration exception

  oliche

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• flake

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Commits on Jan 3, 2025

• check only size not hash for S3 re-runs

  oliche

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• setup logger for iblsorter

  oliche

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• update ibl-neuropixels requirement

  oliche

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• add waveform files to the output list

  oliche

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Commits on Jan 4, 2025

• remove duplicate files in output task

  oliche

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Commits on Jan 6, 2025

• replace ricker function that has been removed in scipy

  oliche

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• Merge pull request #901 from int-brain-lab/aws

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  oliche

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Commits on Jan 7, 2025

• update environment for litpose task

  mayofaulkner

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Commits on Jan 13, 2025

• updated requirements, updated pipelines

  grg2rsr

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Commits on Jan 16, 2025

• add in slices kwarg to pass into suite2p params

  mayofaulkner

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Commits on Jan 17, 2025

• fibers are now named fiber_{brain_region} in the extraction process

  grg2rsr

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Commits on Jan 20, 2025

• add default n_ephys value to criterion delay

  mayofaulkner

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• unpack criteria

  mayofaulkner

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• catch error for displaying info

  mayofaulkner

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Commits on Jan 21, 2025

• Merge branch 'develop' into litpose

  oliche

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• avoid dummy package for iblqt

  oliche

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• Merge pull request #900 from int-brain-lab/litpose

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  oliche

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Commits on Jan 22, 2025

• plot to create a star plot

  oliche

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• most of the time it doesn´t make sense to have a different origin than 0

  oliche

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Commits on Jan 27, 2025

• ensure sparse_npz files are registered

  mayofaulkner

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Commits on Jan 29, 2025

• Merge pull request #917 from int-brain-lab/starplot

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  oliche

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Commits on Jan 31, 2025

• One3 (#926)

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  oliche

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  k1o0

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Commits on Feb 3, 2025

• correct positions

  mayofaulkner

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Commits on Feb 11, 2025

• Support for UUID objects in Notes

  k1o0

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Commits on Feb 12, 2025

• Merge branch 'develop' into mesoscope_multidepth

  mayofaulkner

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• Merge branch 'develop' into docs

  mayofaulkner

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Commits on Feb 13, 2025

• Fix error in MesoscopeCompress when compressing multiply imaging bouts

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  k1o0

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• Selectively remove old FOV datasets in MesoscopePreprocess (issue #928)

  k1o0

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Commits on Feb 17, 2025

• update queries for ONE 3

  mayofaulkner

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  e8a4c1e

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• Merge pull request #936 from int-brain-lab/docs

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  mayofaulkner

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• Merge pull request #908 from int-brain-lab/mesoscope_multidepth

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  mayofaulkner

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• Add PROJECT_EXTRACTION_VERSION and TASK_VERSION to session JSON (issue #898)

  k1o0

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• Remove junk IDE folder

  k1o0

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• Handle extraction of sessions where first Bpod trial missed on FPGA (issue #909)

  k1o0

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Commits on Feb 24, 2025

• fixing shifted sync timestamps in the extraction

  grg2rsr

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• reading digital inputs file via iblphotometry.io (validated)

  grg2rsr

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Commits on Feb 28, 2025

• Update ONE version requirement

  k1o0

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Commits on Mar 3, 2025

• Bump version; use ensure_list

  k1o0

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Commits on Mar 4, 2025

• Merge remote-tracking branch 'origin/develop' into photometry-integration

  grg2rsr

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  16ffbc4

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• fix for reextraction (.pqt file read instead of .csv) for digital_inputs from neurophotometrics

  grg2rsr

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Commits on Mar 6, 2025

• bugfix in the extractor after fix in the experiment description file

  grg2rsr

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