0.5.0

Added

• [ENH] Extra metadata have been added to the output of the generalize step to better align with BIDS BEP20 by @Remi-Gau in #232

Changed

• [ENH] Output filenames of the prepare step has been changed to use the timeseries suffix and the output of the generalize step now include the name of the Deepmreye model used to compute them by @Remi-Gau in #232

• [ENH] use non-linear alignment as default by @Remi-Gau in #234

Removed

• [ENH] the --non_linear_coreg CLI argument was replaced by the --linear_coreg by @Remi-Gau in #234

Fixed

• [FIX] do not apply run found for one task to all tasks by @Remi-Gau in #228

Full Changelog: 0.4.0...0.5.0

0.4.0

What's Changed

• [FIX] update file naming when run indices are padded by @Remi-Gau in #146
• [MAINT] move most of the config to pyproject.toml by @Remi-Gau in #147
• [MAINT] update packaging by @Remi-Gau in #165
• [MAINT] pin pooch dependency by @Remi-Gau in #166
• [STY] use isort by @Remi-Gau in #191
• [FIX] pin keras and fix make file by @Remi-Gau in #197
• [FIX] fix deploy to github on Circle CI by @Remi-Gau in #210
• [ENH] improve error messages for invalid input data by @Remi-Gau in #150
• [ENH] turn --action into subcommands by @Remi-Gau in #215
• [ENH] Skip prepare and QC if output already exists by @Remi-Gau in #216
• [FIX] handle exceptions for QC at group level when participants are missing QC data by @Remi-Gau in #217
• [FIX] Use repetition time from BIDS metadata instead of nifti header by @Remi-Gau in #218
• [FIX] save models in output dir by @Remi-Gau in #219
• [FIX] improve help for missing subject / task by @Remi-Gau in #220

Full Changelog: 0.3.1...0.4.0

0.3.1

What's Changed

• [ENH] update config by @Remi-Gau in #126
• [MNT] update docker and doc by @Remi-Gau in #118
• [FMT] format yml by @Remi-Gau in #120
• [INFRA] improve docker by @Remi-Gau in #122
• [DOC] update FAQ by @Remi-Gau in #121
• [INFRA] use code cov token by @Remi-Gau in #125
• [INFRA] verbose in ci by @Remi-Gau in #127
• [DOC] add CLI info for group level by @Remi-Gau in #128
• [INFRA] do not fail CI when coverage cannot be uploaded by @Remi-Gau in #129

Full Changelog: 0.3.0...0.4.0

0.3.0

What's Changed

• [ENH] run QC on input data by @Remi-Gau in #113
• [ENH] add group level QA plot and table by @Remi-Gau in #115

Full Changelog: 0.2.0...0.3.0

0.2.0

What's Changed

• [DOC] add logo by @Remi-Gau in #89
• [MISC] by @Remi-Gau in #92
• [MNT] add workflow to run on openneuro data by @Remi-Gau in #90
• [ENH] improve log and change verbosity parameter by @Remi-Gau in #96
• [ENH] improve model download by @Remi-Gau in #97
• [ENH] improve methods by @Remi-Gau in #98
• [ENH] add CCO license by default by @Remi-Gau in #99
• [ENH] add possibility to used ANTs non linear registration by @Remi-Gau in #100
• [ENH] add basic QC by @Remi-Gau in #102
• [ENH] add basic QC (Sourcery refactored) by @sourcery-ai in #104
• [MNT] update badge by @Remi-Gau in #105
• [FIX] fix typo in import by @Remi-Gau in #107
• [MNT] add release drafter - skip-ci by @Remi-Gau in #108

Full Changelog: 0.1.2...0.2.0

0.1.2

update version tag prefix

0.1.0

What's Changed

• [MNT] coverage, doc, config by @Remi-Gau in #20
• [ENH] save one output per subject (Sourcery refactored) by @sourcery-ai in #27
• [ENH] save one output per subject by @Remi-Gau in #26
• [ENH] add CLI by @Remi-Gau in #28
• [REF] use Path instead of os.path by @Remi-Gau in #31
• [MNT] set up dev docker by @Remi-Gau in #32
• [ENH] use logging by @Remi-Gau in #34
• Dockerfile make (Sourcery refactored) by @sourcery-ai in #41
• Dockerfile make by @WeeXee in #40
• [INFRA & ENH] method section and vscode extensions by @Remi-Gau in #45
• [ENH] set up config class (Sourcery refactored) by @sourcery-ai in #50
• [ENH] set up config class by @Remi-Gau in #48
• [ENH] run on several files by @Remi-Gau in #52
• [MISC] openneuro demo, add run argument, use pybids database... by @Remi-Gau in #58
• [ENH] downloads all models by @Remi-Gau in #60
• [FIX] do not specify nb args in argparse of CLI as leads to failure of constructing the config by @Remi-Gau in #63
• [MNT] lint (Sourcery refactored) by @sourcery-ai in #75
• [MNT] lint by @Remi-Gau in #74
• [MNT] prepare for pypi release by @Remi-Gau in #85

New Contributors

• @pre-commit-ci made their first contribution in #1
• @Remi-Gau made their first contribution in #20
• @sourcery-ai made their first contribution in #27
• @WeeXee made their first contribution in #40
• @allcontributors made their first contribution in #46
• @Naubody made their first contribution in #66
• @dependabot made their first contribution in #70

Full Changelog: https://github.com/cpp-lln-lab/bidsMReye/commits/0.1.0