0.11.0

Release Notes

New feature release in the 0.11.x series.

This version bump reflects changes that appear mostly in PyBIDS, including improved handling of intercept columns and variables from tabular metadata files like participants.tsv.

Changes

• MNT: Use latest coverage by @effigies in #354
• MNT: Remove unused packages from docker image by @effigies in #353
• Allow models with no name by @adelavega in #357
• PIN pybids 0.15.1 by @adelavega in #363
• RF: Fitlins output reorganization by @shashankbansal6 in #355
• Build(deps): Bump docker/build-push-action from 2 to 3 by @dependabot in #369
• Build(deps): Bump docker/login-action from 1 to 2 by @dependabot in #370
• Build(deps): Bump docker/setup-buildx-action from 1 to 2 by @dependabot in #368
• Build(deps): Bump actions/setup-python from 3 to 4 by @dependabot in #372
• add github source links by @Shotgunosine in #376
• Adding a section on estimators by @Shotgunosine in #375
• DOC: Link out to BIDS Stats Models docs instead of maintaining our own by @Shotgunosine in #378
• CI: Add a build to test with unreleased pybids by @effigies in #386
• FIX: Handle correct contrasts and intercepts being passed from PyBIDS by @effigies in #387

Full Changelog: 0.10.1...0.11.0

0.10.1

Release notes

Bug-fix release in the 0.10.x series.

Most of the fixes come in the upstream fixes of PyBIDS, which will get bundled in
the Docker image.

Changes

• ENH: Set prog name to fitlins, regardless of which CLI program was called (#350)
• MNT: Update bug_report.md (#337)
• CI: Comprehensive testing (#344)
• CI: Unify Docker deployment steps (#334)
• Build(deps): Bump actions/cache from 2 to 3 (#347)
• Build(deps): Bump actions/checkout from 2 to 3 (#343)
• Build(deps): Bump actions/setup-python from 2 to 3 (#340)

Full Changelog: 0.10.0...0.10.1

0.10.0

Release Notes

New feature release in the 0.10.x series.

This release implements support for BIDS Stats Models 1.0.0-rc1.
While we have attempted not to break old-style models, we no longer support them.

What's Changed

• Temporarily pull pybids from github maintenance branch by @adelavega in #308
• Fix version info & detail activating venv on different OS by @complexbrains in #311
• FIX: Minor fixes by @effigies in #326
• RF: Use the new bids stats model by @shashankbansal6 in #298
• DOC: Update example models by @effigies in #294
• Review PR for #298 by @effigies in #314
• STY: Reformat to black, address flake8 issues by @shashankbansal6 in #316
• FIX: minor typo; missed restyling in afni.py by @shashankbansal6 in #328
• ENH: Migrate CircleCI to github actions by @shashankbansal6 in #329
• CI: Check for secrets before deploying, switch to python-build by @effigies in #332
• CI: Update ds003 tests by @effigies in #331

New Contributors

• @complexbrains made their first contribution in #311
• @shashankbansal6 made their first contribution in #298

Full Changelog: 0.9.2...0.10.0

0.9.2

Release Notes

Minor bugfix release in the 0.9.x series.

CHANGES

• FIX: Exclude res from report entities (#301) @adelavega
• MNT: Update to versioneer 0.20 (#300) @effigies
• MNT: codespell run + ignore (#289) @yarikoptic

0.9.1

Release Notes

Bugfix release in the 0.9.x series. Upgrades pybids and nilearn to latest versions.

CHANGES

• PIN: nilearn 0.7.1+ (#286) @effigies
• PIN: Upgrade pybids to 0.13 (#284) @adelavega

0.9.0

Release Notes

New feature release in the 0.9.x series.

CHANGES

This release added AFNI's 3dREMLfit for first-level estimation, dropped nistats in favor of nilearn.stats, added test reference outputs, among other minor improvements.

• FIX: AFNI TSNR calculation, ADD: BlurToFWHM, ADD: testing outputs against reference (#280) *
• FIX: AFNI contrast bool (#266)
• ENH: Writeout estimator to derivative description (#278)
• ENH: disable automatic drift modeling (#276)
• ENH: modify path patterns to make task optional (#275)
• ENH: Add AFNI 3dREMLfit for first-level estimation (#171)
• TST: Add dummy dataset for pytest/local testing (#262)
• MNT: Update PyBIDS and nilearn (#268)
• CI: Make faster? (#264)

0.8.0

Release Notes

New feature release in the 0.8.x series.

This release includes a change where events that are not explicitly convolved are modeled with boxcar functions instead of the nistats default.

CHANGES

• FIX: Sparse matrix should be in long format, and HRF should be None by default (#259)

0.7.0

Release Notes

New feature release in the 0.7.x series. This is an accumulation of changes over several months.

This release requires PyBIDS 0.12 and includes some quite provisional CIFTI-2 support as well as log-likelihood and R^2 maps for assessing goodness of fit.

CHANGES

• FIX: Downgrade Sphinx to <3.0 (#226)
• FIX: Validate BIDS datasets except when searching for models (#214)
• FIX: Blacklist coverage >=5 (#209)
• ENH: Bundle Conte69 surfaces (#249)
• ENH: Add CIFTI-2 support (#239)
• ENH: Add logL as model output (#230)
• ENH: Save model level output (r-squared) (#224)
• ENH: Add FEMA as key value to stat path_pattern (#220)
• RF: Accept nipype configurations from users (#229)
• MNT: Update requirements (#225)
• MNT: Bump pybids to 0.10.2 (#216)
• CI: Improve outputs (#218)

0.6.2

Release Notes

Hotfix release

CHANGES

• FIX: FEMA input index should filter on rows, not columns. (#207) @adelavega

0.6.1

Release Notes

Hotfix release.

CHANGES

• FIX: Add desc=preproc as filter when finding preproc BOLD files (#204) @adelavega