Mriqc Versions Save

Automated Quality Control and visual reports for Quality Assessment of structural (T1w, T2w) and functional MRI of the brain

23.1.0

11 months ago

What's Changed

MAINT: Update deprecated nibabel.spatialimage.get_data() calls by @oesteban in https://github.com/nipreps/mriqc/pull/1096
ENH: Propagate logging level to subprocesses by @ZviBaratz in https://github.com/nipreps/mriqc/pull/1030
ENH: Refactor reports system to use NiReports and the general VRS by @oesteban in https://github.com/nipreps/mriqc/pull/1085
MAINT: Move codespell configuration to pyproject.toml by @oesteban in https://github.com/nipreps/mriqc/pull/1097
ENH: Improving the resource monitor -- infer PID from process name by @esavary in https://github.com/nipreps/mriqc/pull/1049
FIX: Separate report bootstrap files (anat vs. func) by @oesteban in https://github.com/nipreps/mriqc/pull/1098
FIX: Test broken by #1098 by @oesteban in https://github.com/nipreps/mriqc/pull/1100
ENH: Move templates' probsegs into individual at normalization by @oesteban in https://github.com/nipreps/mriqc/pull/1103
FIX: Inform SynthStrip about the desired intraop threads by @oesteban in https://github.com/nipreps/mriqc/pull/1101
ENH: Drop utilization of "head" mask from template by @oesteban in https://github.com/nipreps/mriqc/pull/1104
ENH: Drop FSL BET to estimate the "outskin" (head) mask by @oesteban in https://github.com/nipreps/mriqc/pull/1105
FIX: Refine the head mask after removal of FSL BET by @oesteban in https://github.com/nipreps/mriqc/pull/1107
ENH: Drop FSL MELODIC (without alternative) by @oesteban in https://github.com/nipreps/mriqc/pull/1106
FIX: Remove unused dipy import in the functional interfaces by @oesteban in https://github.com/nipreps/mriqc/pull/1109
ENH: Replace FSL FAST with ANTs Atropos for brain tissue segmentation by @oesteban in https://github.com/nipreps/mriqc/pull/1099
ENH: Culminate dropping FSL as a dependency by @oesteban in https://github.com/nipreps/mriqc/pull/1108
FIX: BIDS database directory handling by @oesteban in https://github.com/nipreps/mriqc/pull/1110
FIX: PlotMosaic expects lists, not tuples by @eilidhmacnicol in https://github.com/nipreps/mriqc/pull/1111
FIX: Add protection for NaNs and INFs when calculating QI2 by @oesteban in https://github.com/nipreps/mriqc/pull/1112
ENH: MRIQC for DWI by @oesteban in https://github.com/nipreps/mriqc/pull/1113
ENH: Add a basic DTI fitting into the diffusion workflow by @oesteban in https://github.com/nipreps/mriqc/pull/1115
ENH: More compact shell-wise summary statistic maps (avg/std) by @oesteban in https://github.com/nipreps/mriqc/pull/1116
ENH: Incorporate new NiReports' DWI heatmaps by @oesteban in https://github.com/nipreps/mriqc/pull/1119

Full Changelog: https://github.com/nipreps/mriqc/compare/23.0.1...23.1.0

23.1.0rc0

1 year ago

What's Changed

MAINT: Update deprecated nibabel.spatialimage.get_data() calls by @oesteban in https://github.com/nipreps/mriqc/pull/1096
Propagate logging level to subprocesses by @ZviBaratz in https://github.com/nipreps/mriqc/pull/1030
ENH: Refactor reports system to use NiReports and the general VRS by @oesteban in https://github.com/nipreps/mriqc/pull/1085

Full Changelog: https://github.com/nipreps/mriqc/compare/23.0.1...23.1.0rc0

23.0.1

1 year ago

What's Changed

FIX: Input data has incompatible dimensionality (plotting ICA) by @oesteban in https://github.com/nipreps/mriqc/pull/1082
ENH: Optimize metadata gathering reusing BIDSLayout db by @oesteban in https://github.com/nipreps/mriqc/pull/1084
DOC : update anatomical example report in documentation by @celprov in https://github.com/nipreps/mriqc/pull/1088
MAINT: Drop old mriqc_plot script by @oesteban in https://github.com/nipreps/mriqc/pull/1091
FIX: Underspecified regex sets BIDSLayout to ignore data with sesions by @oesteban in https://github.com/nipreps/mriqc/pull/1094

Full Changelog: https://github.com/nipreps/mriqc/compare/23.0.0...23.0.1

23.0.0

1 year ago

What's Changed

DOC: Fixes a couple of broken links to RTD nipype docs. by @arokem in https://github.com/nipreps/mriqc/pull/1040
DOC : complete the documentation of summary_stats() by @celprov in https://github.com/nipreps/mriqc/pull/1044
DOC : update documentation with the new carpetplot by @celprov in https://github.com/nipreps/mriqc/pull/1045
MAINT: Rotate CircleCI secrets and setup up org-level context by @oesteban in https://github.com/nipreps/mriqc/pull/1046
ENH: Add migas telemetry by @mgxd in https://github.com/nipreps/mriqc/pull/1036
FIX: Resource monitor would not ever start tracking by @oesteban in https://github.com/nipreps/mriqc/pull/1051
Codespell: config, action, and typos fixed by @yarikoptic in https://github.com/nipreps/mriqc/pull/1057
MAINT: Update CircleCI executor and use built-in docker-compose by @oesteban in https://github.com/nipreps/mriqc/pull/1061
MAINT: Add McKenzie to the maintainers table by @oesteban in https://github.com/nipreps/mriqc/pull/1059
Add myself to CONTRIBUTORS by @yarikoptic in https://github.com/nipreps/mriqc/pull/1060
FIX: Update T1w metrics by @oesteban in https://github.com/nipreps/mriqc/pull/1063
FIX: Preempt PyBIDS to spend time indexing non-BIDS folders by @oesteban in https://github.com/nipreps/mriqc/pull/1050
MAINT: Fix minor aspects of WebAPI deployment on CircleCI by @oesteban in https://github.com/nipreps/mriqc/pull/1064
MAINT: Update niworkflows pin to support newer ANTs releases by @esavary in https://github.com/nipreps/mriqc/pull/1047
MAINT: add @esavary as a contributor by @oesteban in https://github.com/nipreps/mriqc/pull/1066
FIX: Move telemetry atexit into entrypoint func by @mgxd in https://github.com/nipreps/mriqc/pull/1067
MAINT: Pin PyBIDS 0.15.6 (culminating #1050) by @oesteban in https://github.com/nipreps/mriqc/pull/1069
MAINT: Migrate to hatchling by @oesteban in https://github.com/nipreps/mriqc/pull/1070
MAINT: Conclude porting of reportlets into NiReports by @oesteban in https://github.com/nipreps/mriqc/pull/1068
ENH: Add DataLad getter to inputs of functional workflows by @oesteban in https://github.com/nipreps/mriqc/pull/1071
FIX: Uniformize building workflow message (anat vs. func) by @oesteban in https://github.com/nipreps/mriqc/pull/1072
MAINT: Move Zvi to maintainers list by @oesteban in https://github.com/nipreps/mriqc/pull/1074
MAINT: Add Ariel to contributors and PIs by @oesteban in https://github.com/nipreps/mriqc/pull/1073
MAINT: Add Patrick Sadil to contributors by @oesteban in https://github.com/nipreps/mriqc/pull/1075
MAINT: Move Eilidh from contributors to maintainers by @oesteban in https://github.com/nipreps/mriqc/pull/1076
FIX: Address non-empty take from empty axes (anatomical IQMs) by @oesteban in https://github.com/nipreps/mriqc/pull/1077
MAINT: Pacify codespell by @oesteban in https://github.com/nipreps/mriqc/pull/1080
MAINT: Update NiReports calls to upcoming interfaces API by @oesteban in https://github.com/nipreps/mriqc/pull/1078
FIX: orientation of visualisations when species == "rat" by @eilidhmacnicol in https://github.com/nipreps/mriqc/pull/1027

New Contributors

@arokem made their first contribution in https://github.com/nipreps/mriqc/pull/1040
@yarikoptic made their first contribution in https://github.com/nipreps/mriqc/pull/1057
@esavary made their first contribution in https://github.com/nipreps/mriqc/pull/1047

Full Changelog: https://github.com/nipreps/mriqc/compare/22.0.6...23.0.0

23.0.0rc1

1 year ago

What's Changed

ENH: Add DataLad getter to inputs of functional workflows by @oesteban in https://github.com/nipreps/mriqc/pull/1071
FIX: Uniformize building workflow message (anat vs. func) by @oesteban in https://github.com/nipreps/mriqc/pull/1072

Full Changelog: https://github.com/nipreps/mriqc/compare/23.0.0rc0...23.0.0rc1

23.0.0rc0

1 year ago

What's Changed

DOC: Fixes a couple of broken links to RTD nipype docs. by @arokem in https://github.com/nipreps/mriqc/pull/1040
DOC : complete the documentation of summary_stats() by @celprov in https://github.com/nipreps/mriqc/pull/1044
DOC : update documentation with the new carpetplot by @celprov in https://github.com/nipreps/mriqc/pull/1045
MAINT: Rotate CircleCI secrets and setup up org-level context by @oesteban in https://github.com/nipreps/mriqc/pull/1046
ENH: Add migas telemetry by @mgxd in https://github.com/nipreps/mriqc/pull/1036
FIX: Resource monitor would not ever start tracking by @oesteban in https://github.com/nipreps/mriqc/pull/1051
Codespell: config, action, and typos fixed by @yarikoptic in https://github.com/nipreps/mriqc/pull/1057
MAINT: Update CircleCI executor and use built-in docker-compose by @oesteban in https://github.com/nipreps/mriqc/pull/1061
MAINT: Add McKenzie to the maintainers table by @oesteban in https://github.com/nipreps/mriqc/pull/1059
Add myself to CONTRIBUTORS by @yarikoptic in https://github.com/nipreps/mriqc/pull/1060
FIX: Update T1w metrics by @oesteban in https://github.com/nipreps/mriqc/pull/1063
FIX: Preempt PyBIDS to spend time indexing non-BIDS folders by @oesteban in https://github.com/nipreps/mriqc/pull/1050
MAINT: Fix minor aspects of WebAPI deployment on CircleCI by @oesteban in https://github.com/nipreps/mriqc/pull/1064
MAINT: Update niworkflows pin to support newer ANTs releases by @esavary in https://github.com/nipreps/mriqc/pull/1047
MAINT: add @esavary as a contributor by @oesteban in https://github.com/nipreps/mriqc/pull/1066
FIX: Move telemetry atexit into entrypoint func by @mgxd in https://github.com/nipreps/mriqc/pull/1067
MAINT: Pin PyBIDS 0.15.6 (culminating #1050) by @oesteban in https://github.com/nipreps/mriqc/pull/1069
MAINT: Migrate to hatchling by @oesteban in https://github.com/nipreps/mriqc/pull/1070
MAINT: Conclude porting of reportlets into NiReports by @oesteban in https://github.com/nipreps/mriqc/pull/1068

New Contributors

@arokem made their first contribution in https://github.com/nipreps/mriqc/pull/1040
@yarikoptic made their first contribution in https://github.com/nipreps/mriqc/pull/1057
@esavary made their first contribution in https://github.com/nipreps/mriqc/pull/1047

Full Changelog: https://github.com/nipreps/mriqc/compare/22.0.6...23.0.0rc0

22.0.6

1 year ago

What's Changed

FIX: Better fix to the multi-argument --participant-label issue by @oesteban in https://github.com/nipreps/mriqc/pull/1026

Full Changelog: https://github.com/nipreps/mriqc/compare/22.0.5...22.0.6

22.0.5

1 year ago

What's Changed

FIX: Multiple valued --participant-label wrongly parsed by @oesteban in https://github.com/nipreps/mriqc/pull/1025

Full Changelog: https://github.com/nipreps/mriqc/compare/22.0.4...22.0.5

22.0.4

1 year ago

What's Changed

ENH: Bump Docker base to latest release by @oesteban in https://github.com/nipreps/mriqc/pull/1022
FIX: Major improvements to new datalad-based interface & perform within containers by @oesteban in https://github.com/nipreps/mriqc/pull/1024

Full Changelog: https://github.com/nipreps/mriqc/compare/22.0.3...22.0.4

22.0.3

1 year ago

What's Changed

MAINT: Fix failing tests as python setup.py is deprecated by @oesteban in https://github.com/nipreps/mriqc/pull/1013
MAINT: Update the T1w IQMs to the new reference after #997 by @oesteban in https://github.com/nipreps/mriqc/pull/1014
ENH: New version of the rating widget by @oesteban in https://github.com/nipreps/mriqc/pull/1012
MAINT: Several critical updates to CircleCI and Docker images by @oesteban in https://github.com/nipreps/mriqc/pull/1016
MAINT: Fix statsmodels dependency, it is not optional by @oesteban in https://github.com/nipreps/mriqc/pull/1017
DOC: Move readthedocs to use the config v2 file (YAML) by @oesteban in https://github.com/nipreps/mriqc/pull/1018
set rat-specific defaults for FD calculations by @eilidhmacnicol in https://github.com/nipreps/mriqc/pull/1005
ENH: Add a new DataladIdentityInterface by @oesteban in https://github.com/nipreps/mriqc/pull/1020
remove slice-timing correction by @psadil in https://github.com/nipreps/mriqc/pull/1019
FIX: SynthStrip preprocessing miscalculating new shape after reorientation by @oesteban in https://github.com/nipreps/mriqc/pull/1021

New Contributors

@psadil made their first contribution in https://github.com/nipreps/mriqc/pull/1019

Full Changelog: https://github.com/nipreps/mriqc/compare/22.0.1...22.0.3