Release notes

New feature release in the 0.18.x series.

This release patches the FSL FAST interface to disable bias field correction, which is redundant with N4 and can cause problems in some populations.

Changes

FIX: Respect label order in precomputed derivatives (https://github.com/nipreps/smriprep/pull/478)
FIX: Set FAST bias_iters parameter to 0 (https://github.com/nipreps/smriprep/pull/472)
ENH: Tag structural workflows (https://github.com/nipreps/smriprep/pull/476)
MNT: Update pinned environment, use conda-forge connectome-workbench (https://github.com/nipreps/smriprep/pull/468)

- Python
Published by mgxd 9 months ago

Release notes

New feature release in the 0.17.x series.

This release improves handling of datasets where T1w images are not the primary modality. It also supports the generation of fsLR meshes on the subject surface with the names:

sub-<label>/anat/sub-<label>_hemi-<L|R>_space-fsLR_den-<label>_<surface>.surf.gii

These are useful for plotting CIFTI results on subject anatomy.

Changes

FIX: Stop excluding FS mincmodifyheader used during fallback registration (#453)
ENH: Output fsLR meshes on subject surfaces (#460)
ENH: Support spatial normalization to alternative modalities (#459)
ENH: Add t2w_file output to TemplateFlowSelect (#457)
MNT: Enable pre-release tests (#461)
MNT: Complete transition from flake8/black to ruff (#435)
MNT: Adopt src/ layout and tox (#458)

Full Changelog: https://github.com/nipreps/smriprep/compare/0.16.1...0.17.0

- Python
Published by effigies about 1 year ago

Release Notes

A bug-fix release that reworks selection within the FreeSurfer to native segmentation resampling workflow.

Changelog

FIX: Select function in segmentation resampling workflow (https://github.com/nipreps/smriprep/pull/450)

- Python
Published by mgxd over 1 year ago

Release Notes

Start of the 0.16.x minor series.

This release decouples much of the hardcoded T1w behavior in favor of T1w/T2w options, to allow easier integration with tools less reliant on a single anatomical scan.

Changelog

ENH: Use genericised "anat" input/output for TemplateDimensions (https://github.com/nipreps/smriprep/pull/443)
ENH: Remove much of the hardcoded T1w fields in favor of anat (https://github.com/nipreps/smriprep/pull/433)
RF: Load package data with acres (https://github.com/nipreps/smriprep/pull/448)
RF: space-fsaverage to sphere_reg output files (https://github.com/nipreps/smriprep/pull/446)
MNT: Unpin libitk 5.3 (ANTs 2.5.3 is built with 5.4) (https://github.com/nipreps/smriprep/pull/445)
MNT: Clean up doc builds, environment, style checks (https://github.com/nipreps/smriprep/pull/444)

- Python
Published by mgxd over 1 year ago

Release Notes

New feature release in the 0.15.x series.

This release adds the workflow configuration option and CLI option to reuse existing FreeSurfer outputs without attempting to resume. This should allow for using longitudinal or non-standard pipelines (for example, FastSurfer) without additional tooling for each variant.

Changelog

FIX: Patch version for smriprep-docker (https://github.com/nipreps/smriprep/pull/424)
FIX: Require recent templateflow, select correct aparc dseg.tsv (https://github.com/nipreps/smriprep/pull/420)
ENH: Add --fs-no-resume option to reuse existing FreeSurfer outputs without resuming (https://github.com/nipreps/smriprep/pull/393)
MNT: set copyright owner in LICENSE file (https://github.com/nipreps/smriprep/pull/426)
MNT: Apply Repo-Review suggestions (https://github.com/nipreps/smriprep/pull/422)
CI: Small cleanups to GHA (https://github.com/nipreps/smriprep/pull/423)

- Python
Published by mgxd over 1 year ago

smriprep - 0.14.0

Release notes

New feature release in the 0.14.x series.

This release restores correct handling of cohort identifiers in templates. A feature release is warranted due to changes in the workflow structure.

Changes

FIX: Fetch templates during workflow construction (https://github.com/nipreps/smriprep/pull/418)
FIX: Re-add cohort identifier to template name (https://github.com/nipreps/smriprep/pull/416)
FIX: Repair FreeSurfer Dependency in Dockerfile (tcsh) (https://github.com/nipreps/smriprep/pull/404)
FIX: Invert result of skull-strip check in auto mode (https://github.com/nipreps/smriprep/pull/402)
STY: Adopt ruff for linting and formatting (https://github.com/nipreps/smriprep/pull/397)
CHORE: Update ruff, ignore certain rules (https://github.com/nipreps/smriprep/pull/419)

Full Changelog: https://github.com/nipreps/smriprep/compare/0.13.2...0.14.0

- Python
Published by effigies almost 2 years ago

smriprep - 0.13.2

Release notes

Bug fix release in the 0.13.x series.

This release fixes a check for skull-stripping in auto mode, and adds missing fsLR atlases to the Python package resources. The Docker image has also been updated to ensure FreeSurfer can be run from the sMRIPrep container.

With thanks to Patrick Sadil for reports and fixes.

Changes

ENH: Add 59k atlases (#405)
FIX: Repair FreeSurfer dependency in Dockerfile (tcsh) (#404)
FIX: Invert result of skull-strip check in auto mode (#402)

Full Changelog: https://github.com/nipreps/smriprep/compare/0.13.1...0.13.2

- Python
Published by effigies about 2 years ago

smriprep - 0.13.1

Release notes

Bug fix release in the 0.13.x series.

This release fixes a bug with a workflow connection that was not properly named, and which would cause an error when T2-weighted images were provided.

Changes

FIX: T1wpreproc -> t1wpreproc (#399)

Full Changelog: https://github.com/nipreps/smriprep/compare/0.13.0...0.13.1

- Python
Published by effigies about 2 years ago

smriprep - 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 anatribbonwf 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 https://github.com/nipreps/smriprep/pull/347
@psadil made their first contribution in https://github.com/nipreps/smriprep/pull/357
@dependabot made their first contribution in https://github.com/nipreps/smriprep/pull/391

Full Changelog: https://github.com/nipreps/smriprep/compare/0.12.2...0.13.0

- Python
Published by effigies over 2 years ago

smriprep - 0.12.2

Release Notes

Bug-fix release in the 0.12.x series.

In rare cases where Freesurfer is unable to align to its default atlas in Talairach registration, it was unable to fall back to the Schwartz atlas because we were not including it in the Docker image. This release exists to provide an updated Docker image, and no upgrade is needed for users not encountering this issue.

What's Changed

DOCKER: Include 3T18yoSchwartzReactN32 FreeSurfer atlas in image by @psadil in #357

Full Changelog: https://github.com/nipreps/smriprep/compare/0.12.1...0.12.2

- Python
Published by effigies over 2 years ago

smriprep - 0.12.1

Release Notes

Bug-fix release in the 0.12.x series.

This release correctly generates *_space-fsLR_desc-reg_sphere.surf.gii, which was previously a copy of the standard *_desc-reg_sphere.surf.gii.

What's Changed

FIX: Pass sphereregfsLR to dsregfsLR by @effigies in https://github.com/nipreps/smriprep/pull/350

Full Changelog: https://github.com/nipreps/smriprep/compare/0.12.0...0.12.1

- Python
Published by effigies over 2 years ago

smriprep - 0.12.0

Release Notes

New feature release in the 0.12.x series.

This release adds ANTs DenoiseImage to T1w and T2w preprocessing, improving signal-to-noise ratio. Surface processing now produces a registration sphere to permit directly resampling data from T1w space to fsLR.

What's Changed

FIX: Query templateflow files to see if resolution is available by @mgxd in https://github.com/nipreps/smriprep/pull/336
ENH: Use ANTs DenoiseImage before conforming anatomical images by @effigies in https://github.com/nipreps/smriprep/pull/337
ENH: Project fsLR mesh onto native sphere to enable single-shot resampling into fsLR by @effigies in https://github.com/nipreps/smriprep/pull/339
DOC: Add security fix to vendored jquery by @mgxd in https://github.com/nipreps/smriprep/pull/332
MNT: Loosen niworkflow restriction by @mgxd in https://github.com/nipreps/smriprep/pull/335
CI: Prioritize tags on release by @mgxd in https://github.com/nipreps/smriprep/pull/331
CI: Fix codecov in CircleCI, remove Travis config by @effigies in https://github.com/nipreps/smriprep/pull/333
MNT: Add sloppy argument to workflows, distinguish from debug by @mgxd in https://github.com/nipreps/smriprep/pull/344

Full Changelog: https://github.com/nipreps/smriprep/compare/0.11.1...0.12.0

- Python
Published by effigies over 2 years ago

smriprep - 0.11.1

Release Notes

Bug-fix release in the 0.11.1 series.

This release changes the default name of a workflow. This change modifies the workflow structure superficially, but in such a way that reusing a working directory should present no possibility of error.

What's Changed

RF: Reflect function name on nipype workflow by @mgxd in https://github.com/nipreps/smriprep/pull/328
DOC: Update boilerplate generation with TemplateFlow reference by @oesteban in https://github.com/nipreps/smriprep/pull/329

Full Changelog: https://github.com/nipreps/smriprep/compare/0.11.0...0.11.1

- Python
Published by effigies over 2 years ago

smriprep - 0.11.0

Release Notes

New feature release in the 0.11.x series.

This series supports fMRIPrep 23.0.x and nibabies 23.1.x.

This release drops support for Python 3.7.

What's Changed

ENH: Enable resampling morphometrics to fsLR CIFTI-2 files (#325)
ENH: Add cortical ribbon workflow (#322)
ENH: Merge T2w images and coregister to T1w template (#319)
MAINT: Rotate CircleCI secrets and setup up org-level context (#315)
CI: Update build to match fMRIPrep (#323)

Full Changelog: https://github.com/nipreps/smriprep/compare/0.10.0...0.11.0

- Python
Published by effigies almost 3 years ago

smriprep - 0.10.0

Release Notes

New feature release in the 0.10.x series.

This series supports fMRIPrep 22.1.x and Nibabies 22.2.x.

This will be the last series to support Python 3.7.

Changes

FIX: Expand surfaces pattern to allow morphometrics (#312)
ENH: Bind FreeSurfer subjects directory (#311)
ENH: Output thickness, curvature, and sulcal depth files (#305)
WRAPPER: Update patch location, use --patch syntax (#309)
CI: Fix expected ds054 outputs (#310)
CI: Set max Python version to 3.10 (#308)
CI: Simplify actions to build once, test many (#304)
CI: Update CircleCI docker orb (#302)

Full Changelog: https://github.com/nipreps/smriprep/compare/0.9.2...0.10.0

- Python
Published by effigies about 3 years ago

smriprep - 0.9.2

What's Changed

FIX: Use mris_convert --to-scanner, and update normalization step by @ericfeczko and @effigies in https://github.com/nipreps/smriprep/pull/295

Full Changelog: https://github.com/nipreps/smriprep/compare/0.9.1...0.9.2

- Python
Published by effigies over 3 years ago

smriprep - 0.9.1

What's Changed

FIX: Re-add fsr-checkxopts to Docker image by @effigies in https://github.com/nipreps/smriprep/pull/287
FIX: Re-add missing getfullpath FreeSurfer binary by @mgxd in https://github.com/nipreps/smriprep/pull/290
FIX: Disable -T2pial and -FLAIRpial at -autorecon1 stage by @effigies in https://github.com/nipreps/smriprep/pull/291

Full Changelog: https://github.com/nipreps/smriprep/compare/0.9.0...0.9.1

- Python
Published by effigies over 3 years ago

smriprep - 0.9.0

What's Changed

FIX: Override nipype handling of recon-all hemi input by @effigies in https://github.com/nipreps/smriprep/pull/282
DOC: Fix build by @effigies in https://github.com/nipreps/smriprep/pull/283
DOCKER: Bundle FreeSurfer 7.2 by @effigies in https://github.com/nipreps/smriprep/pull/281

Full Changelog: https://github.com/nipreps/smriprep/compare/0.8.3...0.9.0

- Python
Published by effigies over 3 years ago

smriprep - 0.8.3

Release Notes

Patch release in the 0.8.x series. This allows compatibility with the next minor release of niworkflows.

What's Changed

DOC: update scipy url by @mgxd in https://github.com/nipreps/smriprep/pull/276
MAINT: Allow compatibility with new niworkflows minor by @mgxd in https://github.com/nipreps/smriprep/pull/277

Full Changelog: https://github.com/nipreps/smriprep/compare/0.8.2...0.8.3

- Python
Published by effigies almost 4 years ago

smriprep - 0.8.2

Release Notes

This release includes some minor formatting fixes to the generated workflow boilerplate. Additionally, the Docker image environment was updated.

Changes

DOCKER: Update Dockerfile to match fMRIPrep, using FSL 6 (#274)
FIX: Generated boilerplate formatting (#275)

- Python
Published by mgxd about 4 years ago

smriprep - 0.8.1

Release Notes

Bug-fix release in the 0.8.x series.

All releases since 0.5.3 have incorrectly resampled the (aparc+)aseg segmentations with trilinear interpolation, rather than nearest-neighbor. This fix has also been applied in 0.7.2, to provide a fix in the fMRIPrep LTS series.

Changes

FIX: Resample aseg with nearest-neighbor interpolation (#268)

- Python
Published by effigies about 4 years ago

smriprep - 0.7.2

Release Notes

Bug-fix release in the 0.7.x series.

All releases since 0.5.3 have incorrectly resampled the (aparc+)aseg segmentations with trilinear interpolation, rather than nearest-neighbor. This also reverts to using FAST for tissue probability maps, as the calculations from FreeSurfer's segmentation are less straightforward.

Changes

FIX: Resample aseg with nearest-neighbor interpolation (#268)
FIX: Revert to FAST for tissue probability maps (#264)
CI: Use separate fallback cache for maint/0.7.x (#250)

- Python
Published by effigies over 4 years ago

smriprep - 0.8.0

Release Notes

A new minor release incorporating small iterations and improvements on NiWorkflows, and including some bug-fixes/enhancements.

Changes

DOC: Ensure copyright notice is found in all Python files (#248)
FIX: Revert to FAST for tissue probability segmentations (#263)
FIX: Sturdier version check of sMRIPrep-wrapper package (#245)
FIX: Do not use deprecated --filter pandoc-citeproc generating boilerplate (e72eea5)
FIX: Mask T1w images before transforming to template (#237)
FIX: Account for label entity when querying brain mask (#257)
MAINT: Run pytest on GitHub Actions (#262)
MAINT: Mount TemplateFlow's home directory in CircleCI tests (#246)
MAINT: Run black at the top level of the repo (#241)
MAINT: Update to new API of NiWorkflows (#239)
MAINT: Refactor Dockerfile and move tests from TravisCI to GHA (#240)
MAINT: Use separate fallback cache for maint/0.7.x (#250)
MAINT: CircleCI housekeeping (#258) (#259)

- Python
Published by mgxd over 4 years ago

smriprep - 0.8.0rc2

- Python
Published by oesteban almost 5 years ago

smriprep - 0.8.0rc1

- Python
Published by oesteban almost 5 years ago

smriprep - 0.8.0rc0

- Python
Published by oesteban almost 5 years ago

smriprep - 0.7.1

Release Notes

Bug-fix release in the 0.7.x series.

All releases since 0.4.0 have incorrectly labelled T1w images normalized to a template space as SkullStripped in the corresponding JSON sidecar files. This affects 0.4.x through 0.4.2, 0.5.x through 0.5.3, 0.6.x through 0.6.2, and 0.7.0. Prior to 0.4.0, the images were actually skull-stripped, and the metadata labels were not incorrect.

For backwards compatibility reasons, any future releases of these series will have SkullStripped set to False. In 0.8 and above, the images will be skull-stripped and the metadata set back to True.

CHANGES

CI: CircleCI housekeeping (#234, #235)

- Python
Published by oesteban about 5 years ago

smriprep - 0.7.0

Release Notes

Minor release in preparation for fMRIPrep 20.2.x LTS series. Includes minor features and bug-fixes over the previous 0.6 series.

CHANGES

FIX: Pin NiWorkflows 1.3.1 including bugfix for INU-correction failures (nipreps/niworkflows#567)
FIX: Generate anatomical conversions with full spec from --output-spaces (#219)
FIX: Ordering of probseg maps with anatomical fast-track (#214)
FIX: Progress partial volume maps instead of posteriors (FSL FAST) (#213)
ENH: Retain session info when multi-session data are not averaged (#225)
ENH: Update derivatives description, .bidsignore for derivatives (#220)
ENH: Add --no-tty option to Docker wrapper (#216)
ENH: Add function to handle stale IsRunning files (#207)
MAINT: Upgrade ANTs to 2.3.4 in Dockerfile (365673b)
MAINT: Make workflows keyword-only (PEP 3102) (#208)

- Python
Published by effigies over 5 years ago

smriprep - 0.7.0rc2

Release Notes

Minor release in preparation for fMRIPrep 20.2.x LTS series. Includes minor features and bug-fixes over the previous 0.6 series.

CHANGES

FIX: Pin NiWorkflows 1.3.1 including bugfix for INU-correction failures (nipreps/niworkflows#567)
FIX: Generate anatomical conversions with full spec from --output-spaces (#219)
FIX: Ordering of probseg maps with anatomical fast-track (#214)
FIX: Progress partial volume maps instead of posteriors (FSL FAST) (#213)
ENH: Retain session info when multi-session data are not averaged (#225)
ENH: Update derivatives description, .bidsignore for derivatives (#220)
ENH: Add --no-tty option to Docker wrapper (#216)
ENH: Add function to handle stale IsRunning files (#207)
MAINT: Upgrade ANTs to 2.3.4 in Dockerfile (365673b)
MAINT: Make workflows keyword-only (PEP 3102) (#208)

- Python
Published by oesteban over 5 years ago

smriprep - 0.7.0rc1

Release Notes

Minor release in preparation for fMRIPrep 20.2.x LTS series. Includes minor features and bug-fixes over the previous 0.6 series.

CHANGES

FIX: Generate anatomical conversions with full spec from --output-spaces (#219)
FIX: Ordering of probseg maps with anatomical fast-track (#214)
FIX: Progress partial volume maps instead of posteriors (FSL FAST) (#213)
ENH: Retain session info when multi-session data are not averaged (#225)
ENH: Update derivatives description, .bidsignore for derivatives (#220)
ENH: Add --no-tty option to Docker wrapper (#216)
ENH: Add function to handle stale IsRunning files (#207)
MAINT: Make workflows keyword-only (PEP 3102) (#208)

- Python
Published by oesteban over 5 years ago

smriprep - 0.6.2

Release Notes

Bug-fix release addressing minor problems related to FreeSurfer handling.

CHANGES

FIX: Adapt to the new FS canary interface (backwards compatible) (#205)
FIX: Use t1w2fsnative_xfm to resample segmentations (#201)

- Python
Published by oesteban over 5 years ago

smriprep - 0.5.3

Release Notes

Bug-fix release in the 0.5.x series.

This release fixes a bug where pre-run FreeSurfer that was not in alignment with the T1w template generated by fMRIPrep could result in misaligned segmentation and mask derivatives.

The bug is most likely to occur with pre-run FreeSurfer where multiple T1w images are found. It is easily evident in the first figure in the anatomical section of the reports, and will show heavily misaligned brain mask.

CHANGES

FIX: Use t1w2fsnative_xfm to resample segmentations (#201)

- Python
Published by effigies over 5 years ago

smriprep - 0.6.1

Release Notes

Hotfix release to address an issue recently encountered in fMRIPrep 20.1.0rc3.

CHANGES

FIX: MultiLabel interpolations should not use float=True (#196)

- Python
Published by oesteban over 5 years ago

smriprep - 0.6.0

Release Notes

Minor release in preparation for fMRIPrep 20.1.x series. Features the new implementation of derivatives writers in NiWorkflows, and additional flexibility to use previously computed results (in particular, skull-stripped brains, and the new fast-track that allows skipping the anatomical workflow in full, if all the expected derivatives are provided). Most of the bug-fixes correspond to amendments over these newly added features.

CHANGES

FIX: Convert LTA to ITK with nitransforms (#188)
FIX: Dismiss session entity on most of anatomical derivatives (#193)
FIX: Revise tissue probability maps connections and order (#190)
FIX: Make TPMs label ordering in io_spec.json consistent with workflow (#179)
FIX: Correct the dseg labeling from FSL FAST earlier (#177)
FIX: Ensure bias_corrected is single file, not list (#174)
ENH: Use new DerivativesDataSink from NiWorkflows 1.2.0 (#183)
ENH: Use FreeSurfer's canary to exit fast and with a clear message when the license is missing (#182)
ENH: Execute FSL FAST only with --fs-no-reconall (#180)
ENH: Enable anatomical fast track reusing existing derivatives (#107)
ENH: Add option to skip brain extraction (#167)
MAINT: Remove unused nwf interfaces (#187)
MAINT: Pin troublesome sphinx (#175)
MAINT: Update dependencies to be inline with fMRIPrep-20.1.x (#173)

- Python
Published by oesteban almost 6 years ago

smriprep - 0.6.0rc5

- Python
Published by oesteban almost 6 years ago

smriprep - 0.6.0rc4

- Python
Published by oesteban almost 6 years ago

smriprep - 0.6.0rc3

- Python
Published by oesteban almost 6 years ago

smriprep - 0.6.0rc2

CHANGES

ENH: Enable anatomical fast track reusing existing derivatives (#107) @oesteban
MAINT: Update dependencies to be inline with fMRIPrep-20.1.x (#173) @mgxd

- Python
Published by oesteban almost 6 years ago

FIX: Calculate FoV with shape and zooms (#161) @effigies
FIX: Package version incorrect within Docker image (#155) @oesteban
ENH: Add smriprep.__main__ to allow python -m smriprep (#158) @effigies
MAINT: Revise CircleCI to optimize TemplateFlow and caching (#157) @oesteban

- Python
Published by effigies about 6 years ago

smriprep - 0.4.1-1

Post-release to ensure documentation is built and deployed.

- Python
Published by oesteban about 6 years ago

smriprep - 0.4.1

Release Notes

Bugfix release to address some fMRIPrep issues.

CHANGES

FIX: Use T2/FLAIR refinement at cortribbon stage (#148) @effigies
FIX: Empty specs for legacy/nonstd spaces (#146) @mgxd
DOC: Refactor of documentation (#144) @oesteban

- Python
Published by mgxd about 6 years ago

smriprep - 0.4.0

Release Notes

A new 0.4.x series with a number of new features and bugfixes.

CHANGES

FIX: Allow setting nonstandard spaces for parser (#141) @oesteban
FIX: Normalization workflow API - provide bare template names (#139) @oesteban
FIX: Build smriprep-docker like fmriprep-docker (#138) @oesteban
FIX: Check template identifiers are valid early (#135) @oesteban
FIX: Re-organize FreeSurfer stages to avoid duplication and races (#117) @effigies
FIX: Revise naming of transforms when several T1w images are averaged (#106) @oesteban
FIX: Allow setting nonstandard spaces for parser (#141) @oesteban
ENH: Add --fs-subjects-dir flag (#114) @effigies
ENH: Add smriprep-docker wrapper (#118) @effigies
ENH: Add a README.rst (#103) @oesteban
ENH: Decoupling anatomical reports (#112) @oesteban
ENH: Reduce friction when iterating over target templates (#111) @oesteban
ENH: Write out the fsnative-to-T1w transform (#113) @oesteban
DOC: Minimal refactor preparing release (#140) @oesteban
DOC: Revise numpy docstrings so they are correctly rendered (#134) @oesteban
DOC: Deploy docs to gh-pages from CircleCI - with versioning (#65) @rwblair
CI: Optimize CircleCI using a local docker registry instead docker save/load (#136) @oesteban
CI: Run pytests on Python 3.7 for now (#133) @effigies
CI: Fix packaging test (#115) @effigies
CI: Test packaging and update deploy_pypi step (#119) @effigies
MAINT: Fine-tune versioning extension of sphinx (#121) @oesteban
MAINT: Refactoring inputs/outputs names and some stylistic changes (#108) @oesteban
MAINT: Resolve issues with working directory of ds005 on CircleCI (#110) @oesteban
PIN: niworkflows ~= 1.0.0rc1

- Python
Published by oesteban about 6 years ago

smriprep - 0.4.0rc5

- Python
Published by oesteban about 6 years ago

smriprep - 0.4.0rc4

- Python
Published by oesteban over 6 years ago

smriprep - 0.4.0rc3

- Python
Published by oesteban over 6 years ago

smriprep - 0.4.0rc2

Exercise releasing with the new docker infrastructure.

- Python
Published by oesteban over 6 years ago

smriprep - 0.4.0rc1

- Python
Published by oesteban over 6 years ago

smriprep - 0.3.2

Release Notes

CHANGES

FIX: Render INU-corrected T1w in Segmentation reportlet (#102) @oesteban

- Python
Published by oesteban over 6 years ago

smriprep - 0.3.1

Release Notes

Minor release to update pinnings of niworkflows and TemplateFlow client.

CHANGES

PIN: niworkflows-0.10.1 and templateflow-0.4.1
CI: Fix PyPI deployment (#99) @effigies

- Python
Published by oesteban over 6 years ago

smriprep - 0.3.0

Release Notes

Minor release to allow dependent tools to upgrade to PyBIDS 0.9 series (minimum 0.9.2). We've also moved to a setup.cfg-based setup to standardize configuration.

CHANGES

MAINT: Move to setup.cfg + pyproject.toml (#98) @effigies
MAINT: Use PyBIDS 0.9.x via niworkflows PR (#94) @effigies

- Python
Published by effigies over 6 years ago

smriprep - 0.2.4

Release Notes

Several minor improvements on TemplateFlow integration.

CHANGES

ENH: Use proper resolution in anatomical outputs (#92) @oesteban
ENH: Indicate what templates were not found in TemplateFlow (#91) @oesteban
ENH: Pass template specs on to registration workflow (#90) @oesteban

- Python
Published by oesteban over 6 years ago

smriprep - 0.2.4rc2

- Python
Published by oesteban over 6 years ago

[FIX] Add -cw256 flag for images with FoV > 256 voxels (#36) @oesteban
[ENH] Integrate TemplateFlow to handle templates (#45) @oesteban

- Python
Published by oesteban about 7 years ago

smriprep - 0.0.2

First functional version after forking from fMRIPrep.

- Python
Published by oesteban about 7 years ago

Recent Releases of smriprep

smriprep - 0.18.0

Release notes

Changes

smriprep - 0.17.0

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Changes

smriprep - 0.16.1

Release Notes

Changelog

smriprep - 0.16.0

Release Notes

Changelog

smriprep - 0.15.0

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Changelog

smriprep - 0.14.0

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smriprep - 0.13.2

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smriprep - 0.13.1

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smriprep - 0.13.0

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Changes

New Contributors

smriprep - 0.12.2

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smriprep - 0.12.1

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smriprep - 0.12.0

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What's Changed

smriprep - 0.11.1

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What's Changed

smriprep - 0.11.0

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What's Changed

smriprep - 0.10.0

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Changes

smriprep - 0.9.2

What's Changed

smriprep - 0.9.1

What's Changed

smriprep - 0.9.0

What's Changed

smriprep - 0.8.3

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What's Changed

smriprep - 0.8.2

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Changes

smriprep - 0.8.1

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Changes

smriprep - 0.7.2

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Changes

smriprep - 0.8.0

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Changes

smriprep - 0.8.0rc2

smriprep - 0.8.0rc1

smriprep - 0.8.0rc0

smriprep - 0.7.1

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CHANGES

smriprep - 0.7.0

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CHANGES

smriprep - 0.7.0rc2

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CHANGES