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Merge pull request #3672 from SpikeInterface/prepare_release
Prepare release 0.102.0
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‎doc/releases/0.102.0.rst‎

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.. _release0.102.0:
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SpikeInterface 0.102.0 release notes
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------------------------------------
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7th February 2025
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Main changes:
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* Added auto-label functions in curation module (#2918)
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* Refactored and improved auto-merge functions in curation module (#3435, #3601)
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* Added `spikeinterface.load()` function to load any SpikeInterface object (#3613, #3651)
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* Improved handling of time in base recording (#3509, #3623)
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* Multi-segment handling of motion interpolation (#3659)
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* Support for Numpy 2.0 (#3481)
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core:
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* Extend si.load capabilities (#3651)
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* Use process as default in global job kwargs (#3648)
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* Fix node pipeline when multiple retrievers (#3642)
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* Add `get_start_time`/`get_end_time` functions and use them in `get_duration` (#3623)
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* Fix dataframe index dtype due to csv in quality metrics (#3622)
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* Replace `load_extractor` with `load_function` from `loading.py` (#3613)
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* Adding SharedMemoryTemplates (#3580)
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* Implement engine="thread" in ChunkRecordingExecutor (#3526)
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* Add `shift start time` function. (#3509)
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* recording_slices in run_node_pipeline() (#3506)
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* Template loading average or median (#3495)
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* Refactor matching with nodepiepeline (#3447)
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* Improve noise level machinery (#3359)
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* nodepipeline : skip chunks when no peaks inside and skip_after_n_peaks (#3356)
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extractors:
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* Pin `pyedflib` version after breaking change in annotations (#3644)
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* Add experiment_name annotation to open ephys (#3624)
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* Add `NwbTimeSeriesExtractor` to load non-electrical series data from NWB (#3587)
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* Add `stream_mode` as extra_requirements for NWB when streaming (#3548)
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* Fix cbin_file_path (#3524)
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* Expose reading attempts in Plexon2 (#3401)
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* Add neuronexus allego recording Extractor (#3235)
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preprocessing:
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* Check for channel_indices is None (#3636)
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* Fix silence periods (#3557)
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* Extend whitening tests (#3531)
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* Don't let decimate mess with times and skim tests (#3519)
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* Whitening fix - compute covariance matrix in float (#3505)
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sorters:
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* Change to default value `use_binary_file=True` for KS4 (#3614)
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* Remove Non-Serializable writing of json (#3482)
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* Sc2 fixes (#3250, #3518)
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postprocessing:
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* Add a fast correlogram merge (#3607)
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* Unify template and quality metrics (#3537)
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* Only load `template_metrics` extension on compute if keeping some metrics (#3478)
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* Unit localization (#3476)
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* Optimizations for template_similarity (numba and dependencies) (#3405)
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qualitymetrics:
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* Hard code `synchony_sizes` (#3559)
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* Unify template and quality metrics (#3537)
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* Fix dtype of quality metrics before and after merging (#3497)
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curation:
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* Small fixes in curation format and `apply_curation()` (#3601)
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* Refactoring auto_merge (#3435)
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* Automatic curation with metrics (#2918)
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widgets:
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* Make `time_range` conversion to array dtype `float64` (#3638)
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* Fix `plot_sorting_summary` widget (#3627)
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* Changes for spikeinterface-gui (#3616)
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* Patch to allow ipywidget plot_unit_templates to work with sparse templates (instead of analyzer) (#3575)
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* Allow `export_report` to run without waveforms (#3493)
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* Add vspacing_factor as a param for TracesWidget (#3461)
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generators:
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* Use strings as ids in generators (#3588)
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sortingcomponents:
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* Split PCA (#3610)
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* Adding Hanning filtering (#3604)
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* Fix use of keep during run_sorter benchmark (#3556)
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* Clustering components api (#3533)
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* Kilosort-matching in SpikeInterface (#3488)
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* Matched filtering with both peak signs simultaneously (#2914)
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motion correction:
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* Multi-segment handling in motion interpolation (#3659)
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* MotionEstimationStudy : plot drift with the scatter plot (#3553)
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* Fix a cross-band interpolation bug, and allow time_vector in interpolate_motion (#3517)
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documentation:
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* Fix plot_1_automated_curation.py (#3674)
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* Extend templates extension docs (#3663)
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* Use SpikeInterface-ported pre-trained models in doc (#3652)
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* Dev Doc touchup (#3641)
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* Fix precision/recall in hybrid example (#3635)
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* Improve docstring of `get_neuropixels_sample_shifts` (#3620)
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* Switch RTD build to fail on gallery example failure (#3619)
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* Fix sphinx doc build (#3612)
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* Convert generated unit_ids in docs to strings (#3600)
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* Correct method default in docstring (#3570)
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* Add custom tutorials index page. (#3504)
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* Add error messaging around use of get data in templates (#3501)
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* Fix a few typos in the curation docs (#3496)
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* Improve error message for `set_probegroup`/`set_probe` (#3479)
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continuous integration:
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* Fix codecov tests (#3569)
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* Add python 313 to CI test (#3481)
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packaging:
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* Support numpy 2.0 (#3640)
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* Force latest hdmf-zarr version (#3639)
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* Update zarr version (#3598)
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testing:
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* Add python Numpy2.0 to CI test (#3481)
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Contributors:
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* @522848942
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* @JoeZiminski
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* @OlivierPeron
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* @alejoe91
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* @anoushkajain
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* @chrishalcrow
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* @cwindolf
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* @guptadivyansh
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* @h-mayorquin
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* @jakeswann1
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* @RobertoDF
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* @samuelgarcia
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* @yger
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* @zm711

‎doc/whatisnew.rst‎

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.. toctree::
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:maxdepth: 1
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releases/0.102.0.rst
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releases/0.101.2.rst
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releases/0.101.1.rst
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releases/0.101.0.rst

‎pyproject.toml‎

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# for github test : probeinterface and neo from master
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# for release we need pypi, so this need to be commented
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"probeinterface @ git+https://github.com/SpikeInterface/probeinterface.git",
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"neo @ git+https://github.com/NeuralEnsemble/python-neo.git",
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# "probeinterface @ git+https://github.com/SpikeInterface/probeinterface.git",
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# "neo @ git+https://github.com/NeuralEnsemble/python-neo.git",
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]
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test_extractors = [
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# Functions to download data in neo test suite
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"pooch>=1.8.2",
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"datalad>=1.0.2",
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"probeinterface @ git+https://github.com/SpikeInterface/probeinterface.git",
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"neo @ git+https://github.com/NeuralEnsemble/python-neo.git",
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# "probeinterface @ git+https://github.com/SpikeInterface/probeinterface.git",
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# "neo @ git+https://github.com/NeuralEnsemble/python-neo.git",
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]
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test_preprocessing = [
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# for github test : probeinterface and neo from master
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# for release we need pypi, so this need to be commented
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"probeinterface @ git+https://github.com/SpikeInterface/probeinterface.git",
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"neo @ git+https://github.com/NeuralEnsemble/python-neo.git",
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# "probeinterface @ git+https://github.com/SpikeInterface/probeinterface.git",
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# "neo @ git+https://github.com/NeuralEnsemble/python-neo.git",
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]
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docs = [
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"datalad>=1.0.2",
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# for release we need pypi, so this needs to be commented
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"probeinterface @ git+https://github.com/SpikeInterface/probeinterface.git", # We always build from the latest version
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"neo @ git+https://github.com/NeuralEnsemble/python-neo.git", # We always build from the latest version
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# "probeinterface @ git+https://github.com/SpikeInterface/probeinterface.git", # We always build from the latest version
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# "neo @ git+https://github.com/NeuralEnsemble/python-neo.git", # We always build from the latest version
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]
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‎src/spikeinterface/__init__.py‎

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# This flag must be set to False for release
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# This avoids using versioning that contains ".dev0" (and this is a better choice)
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# This is mainly useful when using run_sorter in a container and spikeinterface install
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DEV_MODE = True
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# DEV_MODE = False
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# DEV_MODE = True
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DEV_MODE = False

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