0.21.1

What's Changed

There are important software updates in this release, along with a lot of infrastructure improvements.

Important Changes

• FSL version 6.0.7.8 is now in qsiprep. This contains 2 serious bugfixes. One has to do with susceptibility-by-volume correction and the other resulted in incorrect CNR values being calculated.
• DSI Studio has been updated to fix a bug in Neighboring DWI Correlation.
• You can use "mporder" in your eddy config json file and the slice timings will automatically be created and passed to eddy (even if you're concatenating runs)
• Recon workflows can now include a "bundle mapping" and "scalar mapping", where scalars created in individual workflows can be mapped to a template or summarized inside autotrack bundles. This does not do tract profiles or surface mapping - yet. See qsiprep/data/pipelines/hbcd_scalar_maps.json for an example.
• The recon derivatives are written approximately according to BEP-016

🎉 Exciting New Features

• [ENH] Add workflow to resample recon scalars to template space by @mattcieslak in #688
• Support complex-valued dwidenoising by @tsalo in #679
• [ENH] Add ReconScalars node to recon workflows by @mattcieslak in #683
• Pin current version of pyAFQ (1.3.1) by @arokem in #729
• [ENH] Add TORTOISE Estimator recon workflows by @mattcieslak in #674
• [ENH] Make Eddy's slice2vol much easier to use by @mattcieslak in #710

Other Changes

• Apply stylistic changes to workflows/base.py by @tsalo in #678
• Pin Nilearn version by @tsalo in #687
• Add a series of infrastructure files from ASLPrep/XCP-D by @tsalo in #684
• Run isort and remove unused imports by @tsalo in #690
• Apply stylistic changes to workflows/utils.py by @tsalo in #680
• Remove unused classes flagged by vulture by @tsalo in #693
• [RF] Use Black to reformat package by @mattcieslak in #701

Bugfixes

• [FIX] Prevent undecodable terminal output in calc_connectivity by @mattcieslak in #711
• [FIX] save recon anat files by @mattcieslak in #702
• [FIX] revert citeproc for old pandoc by @mattcieslak in #736
• [FIX] recon workflows when --anat-modality T2w was used by @mattcieslak in #734
• [FIX] remove old nodes from csdsi_3dshore.json by @kjamison in #733
• [ENH] Update TORTOISE for lower cuda memory use by @mattcieslak in #730

New Contributors

• @kjamison made their first contribution in #733

Full Changelog: 0.20.0...0.21.1