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CHANGELOG.md

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Changelog

All notable changes to this project will be documented in this file.

The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

Unreleased

Added

Changed

  • [ENH] Change output layout to match that of nipoppy (#190 @Remi-Gau)

Deprecated

Removed

Security

0.3.0 - 2024-04-06

Added

  • [ENH] Add non-openneuro datasets (ABIDE, CORR, ADHD200, Neuromod...). (#124 @Remi-Gau)
  • [ENH] Add Dash app to help browse and visualizse all known datasets.
  • [ENH] Improved listing of knonwn datasets to include:
    • "scan duration"
    • presence of physio.tsv.gz or stim.tsv.gz files
    • presence of a stimuli directory
    • numbers of the different file formats for EEG, MEG, iEEG
    • references and links associated to each dataset
    • dataset license

Fixed

  • [FIX] Improve datasets listing for datasets with a mix of session level folders absent or present (for example: sub-01/meg and sub-emptyroom/ses-20221212/meg)
  • [FIX] Make datasets URI more generic. (#169 @Remi-Gau)
  • [FIX] handle datasets with fMRIPrep data in subfolders. (#173 @Remi-Gau)

0.2.0 - 2023-09-03

Changed

  • Adapt to neurobagel query tools new outputs formats by using a participant and a dataset input files. #55 @Remi-Gau

Added

  • [ENH] turns output into a yoda datalad dataset. #84 @Remi-Gau
  • [ENH] pass dataset listings as list of strings via the CLI. #82 @Remi-Gau
  • [ENH] Index dataset and return participant listing if not provided. #81 @Remi-Gau
  • [ENH] Skip mriqc if requested. #80 @Remi-Gau
  • [ENH] Add an "all" sub command that runs install, get and copy in sequence. #65 @Remi-Gau
  • [ENH] Add a dockerfile for the package. #64 @Remi-Gau
  • [ENH] Call MRIQC docker to regenerate group level plots after copying mriqc data. #32 @Remi-Gau
  • [ENH] Create a bagel.csv file for a new cohort to list what pipeline has been run on which subject / session pair. #29 @Remi-Gau
  • [ENH] Change output layout output to comply with recommendations from the "Mega" extension to BIDS. #24 @Remi-Gau
  • [ENH] Implement the usage of a "bids filter file" to define "suffix groups" with their own datatype, BIDS entities and suffix and extensions to flexibly allow to copy data from any datatype for each dataset type. #35 @Remi-Gau
  • [ENH] Allow to run without using any participant file. In this case all participants of each datasets are downloaded. #75 @Remi-Gau

Removed

  • Only use the participants file and not the dataset listing file. #34 @Remi-Gau
  • Change output layout output to now comply with recommendations from the "Mega" extension to BIDS. #24 @Remi-Gau