BIDScoin 4.0.0 release

Marcel_Zwiers · March 18, 2023, 10:30am

“I do think,” added Deep Thought, “that you’re going to like it”

The new BIDScoin v4 series is here!

With a lot of important improvements that should make your (and my) life significantly easier :-). The most notable changes are:

Support for BIDS 1.8.0
Support for handling of non-alphanumeric characters in sub/ses prefixes
A new (optional) pet2bids plugin
A skullstrip tool (a bids-wrapper around FreeSurfer/synthstrip)
A slicereport QC tool (a bids-wrapper around FSL/slicesdir)
A unit/integration test & CI framework
New Dockerfile and Apptainer/Singularity definition files to run BIDScoin in a container
A BIDSCOIN_DEBUG environment variable to run bidscoin in a more verbose debug mode
VERBOSE and SUCCESS logging levels
Checks using the bids-validator python module
Options to perform study/template bidsmap tests with bidscoin -b / -t
Option to list and install template bidsmaps
Many bugfixes, user interface improvements and tweaks

The default behaviour is now to not unzip data in the sourcefolders anymore. Instead, users can use the --unzip option in the bidsmapper
The spec2nii plugin is no longer added by default but is optional
The dcm2niix2bids plugin no longer handles PET data (this is now handled by the pet2bids plugin)
Removed BIDScoin’s redundant/confusing datatypes option from the bidsmap
Removed the obscure participants option from bidscoiner
Major code refactoring

Enjoy!