- :bdg-success:`Enhancement` Add the dmriprep workflow.
- :bdg-success:`Enhancement` Add the tbss workflow.
- :bdg-success:`Enhancement` Add the mrophologist workflow.
his is a major release featuring significant changes to both the API and CLI. Please review the modifications below.
- :bdg-success:`Doc` Create doc with furo.
- :bdg-success:`Enhancement` Worflows generate a report file.
- :bdg-success:`Enhancement` Anonymize workflow outputs.
- :bdg-success:`Enhancement` Worflows generate BIDS-compliant organization.
- :bdg-success:`Enhancement` New workflows can generate HTML reporting.
- :bdg-success:`Datasets` Toy datasets have been added to test the module.
- :bdg-success:`Enhancement` Quasi-RAW preprocessing compute the brain mask using mri_synthstrip.
- :bdg-success:`Enhancement` A build‑and‑test container strategy has been released.
- :bdg-success:`Enhancement` The software version has been updated, and the corresponding workflow has been revised accordingly.
- :bdg-success:`Enhancement` A consolidated quality‑check HTML report can now be generated directly from the CLI.
- :bdg-success:`API` A keep_intermediate argument has been added to all workflows to retain intermediate results; useful for debugging.
- :bdg-success:`Doc` A user guide is now available.
- :bdg-success:`Enhancement` Each workflow now has its own dedicated container, enabling easier upgrades without impacting other workflows.”
- :bdg-success:`Enhancement` The brainprep command scope has been limited to the contents of considered container.
- :bdg-success:`Enhancement` Each workflow now includes its own dedicated automatic quality‑check procedure.
- :bdg-danger:`Deprecation` Remove the old dmriprep workflow and tbss workflow (will be updated in v2.1.0).
- :bdg-success:`API` Building blocks are now grouped in an interfaces submodule.
- :bdg-danger:`Deprecation` Path custom white matter mask to recon-all has been deprecated.
- :bdg-success:`Enhancement` Use '--no-annot' in surfreg to avoid using the annotation (aparc) to help with the registration. This was described to create some artifacts on the edge of the medial wall (https://surfer.nmr.mgh.harvard.edu/fswiki/Xhemi).
- :bdg-danger:`Deprecation` Workflows have been renamed.
Released September 2022
- :bdg-success:`API` This release includes different workflows to process antomical, functional and diffusion MR images.
- :bdg-success:`API` All workflows are integrated in a dedicated container to enforce reproducible research.
- :bdg-success:`API` The following workflows are released:
- fsreconall
- fsreconall-summary
- fsreconall-qc
- fsreconall-longitudinal
- cat12vbm
- cat12vbm-qc
- cat12vbm-roi
- quasiraw
- quasiraw-qc
- fmriprep
- fmriprep-conn
- mriqc
- mriqc-summary
- deface
- tbss-preproc
- tbss
- dmriprep