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BIDScoin has been boostered!
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@marcelzwiers marcelzwiers released this 24 Dec 13:20
· 1337 commits to master since this release
3.7.0
ffd338e

Just in time for X-mas, a new and significantly improved BIDScoin release! It's more user-friendly and the codebase has been refactored for a more flexible and powerful usage with plugins and, for advanced use cases, regular expressions. This release is described in more detail in this Frontiers in Neuroinformatics paper :-)

Added

  • A BIDScoin installation test (bidscoin -t)
  • Option to install extra packages, such as phys2bids
  • A bidseditor button to save the Options to a (default) template bidsmap
  • Sub-/ses-prefix settings and BIDS / extra_data / excluded datatypes in bidsmap['Options']['bidscoin']
  • Regular expressions for extracting property and attribute substrings from dynamic values via a <key:regular_expression> syntax
  • A plugin for spec2nii to convert MR spectroscopy data
  • An experimental plugin for phys2bids to convert physiological data
  • An experimental plugin for pet2bids to convert MR spectroscopy data
  • Added a multi-echo deface function medeface that uses the same defacemask for all echo-images
  • The possibility to extract DICOM values using pydicom-style tag numbers (in addition to the attribute name)
  • The possibility for plugins to set default bidsmappings and Options when installed
  • A Singularity container configuration file
  • Improved (more fine-grained) plugin installation procedures
  • The option to remove decimals from age and discard acquisition dates from the meta data

Changed

  • Plugins should now have a is_sourcefile and a get_attribute function and have a simpler/changed API (-> DataSource class)
  • The intricate filtering of the nrfiles property by the other filesystem properties has been removed and is now a pure/unfiltered file-system property
  • The default <<SourceFilePath>> keyword has been replaced by the more flexible <filepath:/sub-(.*?)/> property to extract the subject / session label
  • The dcm2bidsmap and the dcm2niix2bids plugins have been merged
  • The dicomsort utility has new naming-scheme functionality
  • Removed the obsolete bidsmap_template.yaml file

Fixed

  • Avoid storing Python literal structures as strings
  • Various small bugs
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