22.0.0 release candidate 1

Changes

• DOC: Add FAQs page (#164)
• ENH: Add --me-output-echos CLI flag (#174)
• ENH: Precomputed derivatives (#173)
• ENH: Validate files passed with --derivatives (#182)
• FIX: Check if segmentation directory exists (#165)
• FIX: Update report spec to reflect infant_recon_all (#167)
• FIX: ICA Aroma imports (#170)
• FIX: Relabel sub-structures before discarding (#186)
• FIX: Use precomputed aseg within infant_recon_all (#184)
• FIX: Remove excess arguments on wrapper tests (#181)
• MAINT: Add missing toml dependency (f9c26bc)
• MAINT: Add pre-commit checks (#178)
• MAINT: Add RTD config (#173)
• MAINT: Freeze black version (#185)
• RF: Wrapper usage logic (#183)
• STY/TEST: Set global style and doctest options (#162)

21.0.2

Release Notes

A patch release in the 21.0.x series.
This release removes the 24 month age cap for infant recon all processing, as well as includes various small maintenance fixes.

Changelog

• DOC: Use dynamic versioning for examples (#151)
• ENH: Remove infant recon all age cap (#154)
• FIX: Generate boilerplate (#157)
• FIX: Avoid requiring service when checking wrapper version (#159)
• MAINT: Fix dirty version on release (#144)
• MAINT: Only alter pybids config in legacy versions (#152)
• MAINT: Prefetch neonate MNIInfant templates (#159)
• MAINT: Update git-annex version (#159)
• RF: Initialize BIDSLayout with dedicated indexer (#146)

21.0.1

Release Notes

A patch release in the 21.0.x series.

This patch release is for all Docker/Singularity users.

infant_recon_all did not have access to all required templates, causing failures for certain ages.

Changes

• DOCKER: Add missing infant_recon_all templates (130dcf3)

21.0.0

Release Notes

The first major release series of 2021.

This release includes enhancements, such as:

• Fine-grain subcortical alignment during CIFTI generation
• Improved functional registration to template space
• Greatly minimized container environment

Additionally, a plethora of bug-fixes are included, and documentation has been improved.

As with all minor version increments, working directories from previous versions should not be reused.

If you encounter any issues with this release, please let us know by posting an issue on our GitHub page!

Changes

• DOC: Set up external readthedocs documentation (#119) (#126) (#128)
• DOCKER: Reduce container image size (#105) (#133)
• DOCKER: Strip ABI tag from libQt5Core.so.5 (#109)
• DOCKER: Modernize Dockerfile (#85)
• ENH: Port slice timing correction enhancements from fMRIPrep (#137)
• ENH: Change default --output-layout to bids (#130)
• ENH: Subcortical alignment workflow (#72)
• ENH: Framewise displacement head radius flag (#104)
• ENH: Incorporate subcortical CIFTI alignment to functional processing (#102)
• ENH: Do not run infant_recon_all if already completed (#101)
• FIX: Handle sessions when grouping BOLDs (#139)
• FIX: Ensure MNIInfant is added if no --output-spaces are used (#136)
• FIX: Ensure nibabies-wrapper patches are correctly bound (#113)
• FIX: BOLD to template normalization (#99)
• FIX: SDC fieldwarp application (#98)
• FIX: Avoid running BBReg under certain conditions (#95)
• FIX: Standard output spaces (#92)
• FIX: Small Docker environment fixes (#86)
• FIX: Feed NiTransforms with LTAs of type RAS2RAS (#84)
• MAINT: Rename default infant_recon_all output directory (#129)
• MAINT: Bump SDCFlows to latest bugfix version (d799fee)
• MAINT: Attempt to pull most recent dev version (#94)
• MAINT: Initial CircleCI workflow (#93)
• STY: black nibabies module (#118)

0.1.2 Hotfix Release

Release Notes

This release fixes an issue with the BOLD reference grouping logic potentially processing the same BOLD file twice, leading to a duplication error.

Changes

• FIX: BOLD file duplication error (#83)

0.1.1

Release Notes

Summer is here and so is another NiBabies release 🌞 !* This release fixes up issues with BIDS validation, as well as includes a wrapper script to facilitate running with either Docker or Singularity. The wrapper can be installed through pip, like so:

pip install nibabies-wrapper==0.1.1

Check out the full changelog below.

Changes

• FIX: BIDS validation error
• ENH: Additional wrapper script (nibabies-wrapper) to facilitate running through Docker/Singularity
• DOC: Updates anatomical processing figure, adds functional processing figure
• DOC: Fixes typo in README usage

_{* Sorry southern hemisphere users ☃️}

0.1.0

0.1.0 (May 26, 2021)

This minor release includes support for both anatomical and functional preprocessing.

• Implements susceptibility distortion correction for BOLDs
• Improved documentation
• Adds estimated fieldmap report
• Removed unused commandline arguments