0.6.0

What's Changed

• [MAINT] Post release 0.5.0 by @htwangtw in #133
• [BOT] update pre-commit hooks by @github-actions in #134
• [BOT] update pre-commit hooks by @github-actions in #137
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #138
• Bump actions/upload-artifact from 1 to 4 by @dependabot in #139
• Bump docker/login-action from 2.1.0 to 3.1.0 by @dependabot in #140
• EHN save denoising details into meta data by @htwangtw in #145
• [BOT] update pre-commit hooks by @github-actions in #148
• Update subject segmentation outputs by @htwangtw in #146
• FIX when renaming the files, only include entity res when it's present by @htwangtw in #149
• FIX reuse pregenerated subject segmentation or masks by @htwangtw in #150
• Fix/reuse subj mask by @htwangtw in #152
• When re-runing with the same atlases, load segmentations by @htwangtw in #153
• Bump docker/login-action from 3.1.0 to 3.2.0 by @dependabot in #155
• FIX Address the case of no volumes to scrub when given the scrubbing strategy by @htwangtw in #156
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #158
• [BOT] update pre-commit hooks by @github-actions in #160
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #165
• Bump docker/login-action from 3.2.0 to 3.3.0 by @dependabot in #162
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #167
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #170
• [FIX] Make sure version docker images matches version of package in the image by @Remi-Gau in #169
• [ENH] set pybids config by @Remi-Gau in #174
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #178
• [MAINT] drop python 3.8 and support 3.13 by @Remi-Gau in #179
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #180
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #182
• Bump codecov/codecov-action from 4 to 5 by @dependabot in #183
• [DOC] some edits of the docs by @jdkent in #187
• FIX mypy type on mask array for sanity check by @htwangtw in #189
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #188
• Add all contributor bots by @htwangtw in #192
• docs: add htwangtw as a contributor for ideas, research, and 2 more by @allcontributors in #193
• docs: add Hyedryn as a contributor for userTesting by @allcontributors in #194
• FIX QD contribution by @htwangtw in #197
• Fix/contributor by @htwangtw in #198
• docs: add Remi-Gau as a contributor for infra, and maintenance by @allcontributors in #199
• docs: add pbellec as a contributor for ideas, and financial by @allcontributors in #201
• docs: add shnizzedy as a contributor for bug by @allcontributors in #202
• docs: add emullier as a contributor for bug by @allcontributors in #203
• docs: add jdkent as a contributor for bug, and doc by @allcontributors in #204
• FIX underscore -> hyphen in CLI by @htwangtw in #190
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #206
• FIX use types-setuptools as types-all is deprecated by @htwangtw in #191
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #207
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #208
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #209
• Bump docker/login-action from 3.3.0 to 3.4.0 by @dependabot in #210
• Improve documention for both contributors and user by @htwangtw in #205
• DOCS/FIX typo in docstrings by @htwangtw in #214
• JOSS - Improvement on advance usages examples by @htwangtw in #215
• FIX ICA-AROMA implementation by @htwangtw in #216
• docs: add mstimberg as a contributor for userTesting, doc, and bug by @allcontributors in #218
• MAINT fix precommit badge by @htwangtw in #219
• Minor edits on docs by @htwangtw in #222
• Editing fixes for JOSS paper by @mstimberg in #223
• [JOSS] update affiliations by @htwangtw in #224
• DOCS add fmriprep version details by @htwangtw in #227
• REL 0.6.0 by @htwangtw in #226
• update orcid as JOSS requirement by @htwangtw in #228

New Contributors

• @jdkent made their first contribution in #187
• @allcontributors made their first contribution in #193
• @mstimberg made their first contribution in #223

Full Changelog: 0.5.0...0.6.0

0.5.0

What's Changed

• [MAINT] add citation.cff file and validation workflow by @Remi-Gau in #55
• [MAINT] add workflow to update precommit hooks by @Remi-Gau in #56
• [MAINT] run test suite with python 3.12 by @Remi-Gau in #57
• [MAINT] pin dependencies for docker build by @Remi-Gau in #59
• Bump actions/setup-python from 4 to 5 by @dependabot in #60
• Bump actions/checkout from 2 to 4 by @dependabot in #61
• [MAINT] use sphinx argparse to automatically render the cli arguments doc by @Remi-Gau in #71
• [MAINT] run pre-commit in CI to check style by @Remi-Gau in #72
• [MAINT] use tox to install test data by @Remi-Gau in #73
• [MAINT] bump nilearn version to 0.10.2 by @Remi-Gau in #67
• [ENH] use logger instead of print statements by @Remi-Gau in #74
• [DOC] add badges to readme by @Remi-Gau in #85
• [ENH] rerunning the app overrides old files and logs a warning by @Remi-Gau in #83
• [BOT] update pre-commit hooks by @github-actions in #87
• [STY] apply pre-commit hooks by @Remi-Gau in #88
• [BOT] update pre-commit hooks by @github-actions in #90
• [BOT] update pre-commit hooks by @github-actions in #93
• [DOC] update changelog by @Remi-Gau in #84
• [ENH] add methods section by @Remi-Gau in #77
• update the commit hash of mist2templateflow by @htwangtw in #98
• [BOT] update pre-commit hooks by @github-actions in #99
• [STY] apply the new black by @Remi-Gau in #100
• Bump codecov/codecov-action from 3 to 4 by @dependabot in #101
• Bump peter-evans/create-pull-request from 5 to 6 by @dependabot in #102
• Bump actions/cache from 3 to 4 by @dependabot in #103
• Bump pre-commit/action from 3.0.0 to 3.0.1 by @dependabot in #105
• [BOT] update pre-commit hooks by @github-actions in #104
• [MAINT] follow several recommendations from the Scientific Python Library Development Guide by @Remi-Gau in #58
• [ENH] switch tqdm for rich progress bar by @Remi-Gau in #95
• [MAINT] bump all artifact actions at once by @Remi-Gau in #107
• Bump actions/upload-artifact from 3 to 4 by @dependabot in #91
• Bump actions/download-artifact from 3 to 4 by @dependabot in #92
• [ENH] start using mypy and updating types by @Remi-Gau in #86
• change the default atlas to Schaefer20187Networks by @htwangtw in #110
• Remove all group level related process from the workflow by @htwangtw in #112
• Improve documentation on customised atlas and denoising strategy by @htwangtw in #108
• DOCS gigaconnectome workflow with flow chart by @htwangtw in #114
• [ENH] start bidsifying output by @Remi-Gau in #80
• remove psc as an option for standardising output by @htwangtw in #113
• [ENH] add HTML reports for each atlas / masked image by @Remi-Gau in #115
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #122
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #125
• [MAINT] add docker GHA worklow by @htwangtw in #126
• [MAINT] update codecov badge by @Remi-Gau in #128
• [DOC] add docker badge and update docs and links by @Remi-Gau in #130
• ENH harvard oxford atlas by @htwangtw in #132
• JOSS submision by @htwangtw in #118
• REL-0.5.0 by @htwangtw in #131

New Contributors

• @Remi-Gau made their first contribution in #55
• @dependabot made their first contribution in #60
• @github-actions made their first contribution in #87
• @pre-commit-ci made their first contribution in #122

Full Changelog: 0.4.1...0.5.0