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Changelog

Observes Semantic Versioning standard and Keep a Changelog convention.

0.8.1 - 2026-03-03

  • Fix - caiman_loader.py replace branching if/elif with inline None guards for each estimate field.

0.8.0 - 2026-03-02

  • Fix - caiman_loader.py tuple unpacking bug in extract_pw_rigid_mc where nonrigid_correction and nonrigid_blocks were not initialized as separate dicts
  • Fix - caiman_loader.py handle missing spike data (estimates.S is None) in mask extraction when spike deconvolution is not run
  • Add - extract_loader.py support for reconstructed ndsparse format in v7.3 MAT files with sparse spatial weights
  • Update - extract_loader.py handle both sparse and dense arrays in load_results

0.7.1 - 2025-08-05

  • Feature - Explicit n_processes arg in run_caiman to specify number of cores to use
  • Fix - extract_trigger.py to correctly generate MATLAB script to run EXTRACT
  • Fix - extract_loader.py to correctly load spatial weights and temporal weights from v7.3 .mat files

0.7.0 - 2024-08-09

  • Add - memoized_result decorator to cache function results
  • Update - prairie_view_loader.py to create big tiff files from .ome.tif files
  • Update - run_caiman.py to run latest version of CaImAn
  • Update - caiman_loader.py to process output of latest version of CaImAn
  • Fix - general fixes and improvements

[0.6.1] - 2023-08-02

  • Update DANDI upload funtionality to improve useability

0.6.0 - 2023-07-26

  • Update - prairieviewreader.py -> prairie_view_loader.py
  • Update - get_pv_metadata() -> get_prairieview_metadata()
  • Update - Internal variable names within prairie_view_loader.py

0.5.4 - 2023-05-25

  • Fix - DANDI URL for uploads where staging=False.
  • Fix - Docs to remove Google Analytics Key and add Markdown extensions

0.5.3 - 2023-05-11

  • Fix - .ipynb dark mode output for all notebooks.
  • Fix - Remove GOOGLE_ANALYTICS_KEY from u24_element_release_call.yml.

0.5.2 - 2023-04-28

  • Fix - .ipynb output in tutorials is not visible in dark mode.

0.5.1 - 2023-03-15

  • Fix - ingestion routine for multiple Z devices in prairieviewreader.py.

0.5.0 - 2023-01-09

  • Remove - recursive_search function
  • Add - pre-commit checks to the repo to observe flake8, black, isort
  • Add - value_to_bool and QuietStdOut utilities

0.4.2 - 2022-12-16

  • Update - PrairieView loader checks for multi-plane vs single-plane scans.

0.4.1 - 2022-12-15

  • Update - PrairieView loader now reads recording start time from metadata file

0.4.0 - 2022-12-14

  • Add - mkdocs documentation
  • Add - improved docstrings for mkdocs
  • Add - EXTRACT trigger and loader tools

0.3.0 - 2022-10-7

  • Add - Function prairieviewreader to parse metadata from Bruker PrarieView acquisition system
  • Update - Changelog with tag links

0.2.1 - 2022-07-13

  • Add - Adopt black formatting
  • Add - Code of Conduct

0.2.0 - 2022-07-06

  • First release of element-interface.
  • Bugfix - Fix for tifffile import.
  • Add - Function run_caiman to trigger CNMF algorithm.
  • Add - Function ingest_csv_to_table to insert data from CSV files into tables.
  • Add - Function recursive_search to search through nested dictionary for a key.
  • Add - Function upload_to_dandi to upload Neurodata Without Borders file to the DANDI platform.
  • Update - Remove extras_require feature to allow this package to be published to PyPI.

0.1.0a1 - 2022-01-12

  • Change - Rename the package element-data-loader to element-interface.

0.1.0a0 - 2021-06-21

  • Add - Readers for: ScanImage, Suite2p, CaImAn.