0.13.0

Release notes

New feature release in the 0.13.x series.

This release adds support for MSM-Sulc, improving the alignment of subject surfaces to the fsLR template. This process is enabled by default, but may be disabled with the --no-msm flag.

The --fast-track flag has been deprecated in favor of a more flexible --derivatives flag. This flag can be used to specify one or more
directories to search for derivatives. Derivatives found in these directories can be used to skip corresponding workflows. For derivatives that can be deterministically generated from other derivatives, sMRIPrep will regenerate the derivatives to avoid inconsistencies.

This supports the 23.2.x series of fMRIPrep, which introduces a --level flag to control the level of processing. This feature is not currently available in sMRIPrep, but will be in a future release. To preview this functionality, use fMRIPrep's --anat-only flag to run only structural workflows.

Changes

• FIX: Add missing fsLR reg sphere to io_spec (#382)
• FIX: Invert sulcal depth metric before passing to MSM, use HCP atlas files (#383)
• FIX: Update surfaces with fsnative2t1w_xfm (#384)
• FIX: Add surface-modify-sphere call to catch potential sphere elongation (#375)
• ENH: Add T2w/FLAIR usage to boilerplate (#392)
• ENH: Annotate mris_expand with thread usage (#386)
• ENH: Add sphere registration to fit workflow, check for precomputed (#370)
• ENH: Save msm registration sphere as desc-msm_sphere.surf.gii (#365)
• ENH: Add Multimodal Surface Matching (#358)
• ENH: Run pytest on CircleCI (#364)
• ENH: Separate surfaces and morphometrics into standalone outputs (#359)
• RF: Split template and fsLR resampling and sinking into isolated workflows (#388)
• RF: Replace most of anat_ribbon_wf with a Python function (#363)
• RF: Break up surface workflows for easier mix-and-match in fMRIPrep (#360)
• TEST: Add smoke tests for main anatomical workflows (#390)
• TEST: Add sloppy MSM configuration for use in debugging/CI (#366)
• DOC: http:// → https:// (#377)
• DOC: Fix misspelling found by codespell (#378)
• MNT: Remove AFNI from smriprep docker container (#387)
• MNT: Use a set literal, not a list literal (#379)
• MNT: Update installation environment (#361)
• MNT: Include 3T18yoSchwartzReactN32 FreeSurfer atlas in image (#357)
• MNT: Infrastructure updates (#351)
• MNT: fix flake8 warning (#349)
• MNT: apply pyupgrade suggestions (#348)
• MNT: fix typos found by codespell (#346)
• MNT: Python 3.11 should be supported (#347)

New Contributors

• @DimitriPapadopoulos made their first contribution in #347
• @psadil made their first contribution in #357
• @dependabot made their first contribution in #391

Full Changelog: 0.12.2...0.13.0