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@h-mayorquin h-mayorquin released this 27 Aug 22:16
· 90 commits to main since this release
v0.6.0
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v0.6.0 (August 27, 2024)

Deprecations

  • Deprecated WaveformExtractor usage. PR #821
  • Changed the spikeinterface.tool functions (e.g. add_recording, add_sorting) to have _to_nwbfile as suffix PR #1015
  • Deprecated use of compression and compression_options in VideoInterface PR #1005
  • get_schema_from_method_signature has been deprecated; please use get_json_schema_from_method_signature instead. PR #1016
  • neuroconv.utils.FilePathType and neuroconv.utils.FolderPathType have been deprecated; please use pydantic.FilePath and pydantic.DirectoryPath instead. PR #1017
  • Changed the roiextractors.tool function (e.g. add_imaging and add_segmentation) to have the _to_nwbfile suffix [PR #1027]PR #1017

Features

  • Added MedPCInterface for operant behavioral output files. PR #883
  • Support SortingAnalyzer in the SpikeGLXConverterPipe. PR #821
  • Added TDTFiberPhotometryInterface data interface, for converting fiber photometry data from TDT file formats. PR #920
  • Add argument to add_electrodes that grants fine control of what to do with the missing values. As a side effect this drops the implicit casting to int when writing int properties to the electrodes table PR #985
  • Add Plexon2 support PR #918
  • Converter working with multiple VideoInterface instances PR #914
  • Added helper function neuroconv.tools.data_transfers.submit_aws_batch_job for basic automated submission of AWS batch jobs. PR #384
  • Data interfaces run_conversion method now performs metadata validation before running the conversion. PR #949
  • Introduced null_values_for_properties to add_units_table to give user control over null values behavior PR #989

Bug fixes

  • Fixed the default naming of multiple electrical series in the SpikeGLXConverterPipe. PR #957
  • Write new properties to the electrode table use the global identifier channel_name, group PR #984
  • Removed a bug where int64 was casted lossy to float PR #989

Improvements

  • The OpenEphysBinaryRecordingInterface now uses lxml for extracting the session start time from the settings.xml file and does not depend on pyopenephys anymore. PR #971
  • Swap the majority of package setup and build steps to pyproject.toml instead of setup.py. PR #955
  • The DeeplabcutInterface now skips inferring timestamps from movie when timestamps are specified, running faster. PR #967
  • Improve metadata writing for SpikeGLX data interface. Added contact ids, shank ids and, remove references to shanks for neuropixels 1.0. Also deprecated the previous neuroconv exclusive property "electrode_shank_number` PR #986
  • Add tqdm with warning to DeepLabCut interface PR #1006
  • BaseRecordingInterface now calls default metadata when metadata is not passing mimicking run_conversion behavior. PR #1012
  • Added get_json_schema_from_method_signature which constructs Pydantic models automatically from the signature of any function with typical annotation types used throughout NeuroConv. PR #1016
  • Replaced all interface annotations with Pydantic types. PR #1017
  • Changed typehint collections (e.g. List) to standard collections (e.g. list). PR #1021
  • Testing now is only one dataset per test PR #1026
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