Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

fix merge conflicts #2

Closed
wants to merge 169 commits into from

Commits on Apr 27, 2023

  1. Release 0.10.1 (nilearn#3724)

    * update changelog version
    
    * Fix some changelog entries
    
    * Rename changelog file for release
    
    * Add badges
    
    * Add release month
    
    * Remove dev tag in directives
    
    * Fix sphinx docstring userwarning
    
    * [full doc] Request full build
    ymzayek authored Apr 27, 2023
    Configuration menu
    Copy the full SHA
    3214944 View commit details
    Browse the repository at this point in the history

Commits on Apr 28, 2023

  1. Post release 0.10.1 (nilearn#3730)

    * new changelog
    
    * Fix underline
    
    * Update release instructions
    ymzayek authored Apr 28, 2023
    Configuration menu
    Copy the full SHA
    581ce42 View commit details
    Browse the repository at this point in the history
  2. [MAINT] Format nilearn/plotting: apply isort and fix flake8 errors (n…

    …ilearn#3648)
    
    * apply isort
    
    * apply isort
    
    * apply pyupgrade
    
    * flake8 fix
    
    * [DATALAD] Recorded changes
    
    * [DATALAD] Recorded changes
    
    * [DATALAD] Recorded changes
    
    * fix typos
    
    * fix fixtures
    
    * rename fixture
    
    * Update nilearn/plotting/html_stat_map.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update nilearn/plotting/img_plotting.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update nilearn/plotting/surf_plotting.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update nilearn/plotting/img_plotting.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * [DATALAD] Recorded changes
    
    * [DATALAD] Recorded changes
    
    * lint
    
    * fix test
    
    * fix tests
    
    * fix isort
    
    * fix catch
    
    * move fixtures
    
    * revert cfg change
    
    * isort
    
    * isort
    
    * rm old imports
    
    * merge lines
    
    * try skipping fixture import if matplotlib is missing
    
    * keep all fixtures in conftest.py
    
    * stringify parameters in error message
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Remi-Gau and ymzayek authored Apr 28, 2023
    Configuration menu
    Copy the full SHA
    1158167 View commit details
    Browse the repository at this point in the history

Commits on May 1, 2023

  1. Configuration menu
    Copy the full SHA
    3edbbb8 View commit details
    Browse the repository at this point in the history

Commits on May 10, 2023

  1. pre-commit hooks auto-update (nilearn#3734)

    Co-authored-by: Remi-Gau <[email protected]>
    github-actions[bot] and Remi-Gau authored May 10, 2023
    Configuration menu
    Copy the full SHA
    70450b5 View commit details
    Browse the repository at this point in the history

Commits on May 24, 2023

  1. [FIX] Missing values in Decoder.cv_params_ when param_grid is a l…

    …ist of dicts with different keys (nilearn#3733)
    
    * add failing test
    
    * fill in missing param_grid entries in _parallel_fit
    
    * fix formatting
    
    * add entry to changelog
    michellewang authored May 24, 2023
    Configuration menu
    Copy the full SHA
    35ccaba View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    6085633 View commit details
    Browse the repository at this point in the history

Commits on Jun 6, 2023

  1. [DOC] Fix broken doc build (nilearn#3744)

    * [full doc] Fix indent
    
    * [full doc] Request full build
    ymzayek authored Jun 6, 2023
    Configuration menu
    Copy the full SHA
    7e7e1b6 View commit details
    Browse the repository at this point in the history
  2. [MAINT] Clean up remaining files from deprecated datasets (cobre, `…

    …nyu`) (nilearn#3743)
    
    * remove cobre and nyu datasets
    
    * remove unused NYU dataset references
    
    * remove nyu_rest from archive_contents
    
    * add changelog entry
    michellewang authored Jun 6, 2023
    Configuration menu
    Copy the full SHA
    8db2075 View commit details
    Browse the repository at this point in the history

Commits on Jun 7, 2023

  1. [ENH] Use LogisticRegressionCV instead of LogisticRegression to impro…

    …ve Decoder performance (nilearn#3736)
    
    * replace LogisticRegression with LogisticRegressionCV
    
    * update tests for LogisticRegressionCV
    
    * update docstring to use LogisticRegressionCV
    
    * fix bad links for SVC
    
    * update formatting
    
    * add changelog entry
    
    * add a comment to clarify how default Cs are chosen
    
    * replace "C" with "Cs" in param_grid with warning
    michellewang authored Jun 7, 2023
    Configuration menu
    Copy the full SHA
    db5a727 View commit details
    Browse the repository at this point in the history

Commits on Jun 9, 2023

  1. [FIX] Fix tests failing due to deprecations in pre-release dependenci…

    …es (nilearn#3746)
    
    * Fix test in test_html_report
    
    * Fix other test in test_html_report
    
    * Remove raise warning since already tested
    
    * Fix clipping
    
    * Clarify if statement
    
    * Improve if statement
    ymzayek authored Jun 9, 2023
    Configuration menu
    Copy the full SHA
    2d3f10c View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    be86fbe View commit details
    Browse the repository at this point in the history

Commits on Jun 12, 2023

  1. pre-commit hooks auto-update (nilearn#3748)

    Co-authored-by: Remi-Gau <[email protected]>
    github-actions[bot] and Remi-Gau authored Jun 12, 2023
    Configuration menu
    Copy the full SHA
    c93e89a View commit details
    Browse the repository at this point in the history
  2. add more info to adhd example (nilearn#3739)

    * add more info to adhd example
    
    * reformat with black
    
    * change figsize
    
    * Update examples/04_glm_first_level/plot_adhd_dmn.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    ---------
    
    Co-authored-by: Remi Gau <[email protected]>
    Co-authored-by: Yasmin <[email protected]>
    3 people authored Jun 12, 2023
    Configuration menu
    Copy the full SHA
    b576d9f View commit details
    Browse the repository at this point in the history
  3. [MAINT] improve test coverage BaseMasker (nilearn#3721)

    * improve coverage base masker
    
    * isort
    
    * lfkae8
    Remi-Gau authored Jun 12, 2023
    Configuration menu
    Copy the full SHA
    442133d View commit details
    Browse the repository at this point in the history

Commits on Jun 13, 2023

  1. [MAINT] refactor nilearn/maskers (sourcery, f-strings) (nilearn#3685)

    * refactor
    
    * pep8
    
    * Apply suggestions from code review
    
    Co-authored-by: Yasmin <[email protected]>
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Remi-Gau and ymzayek authored Jun 13, 2023
    Configuration menu
    Copy the full SHA
    37333f4 View commit details
    Browse the repository at this point in the history
  2. [MAINT] avoid creating files during testing: test_infer_effect_maps (n…

    …ilearn#3716)
    
    * break test
    
    * add monkey patch
    
    * flake8 fixes
    
    * failing test as the monkeypath version of it works
    
    * rm 'created during testing in gitignore'
    
    * rm bids_dataset
    Remi-Gau authored Jun 13, 2023
    Configuration menu
    Copy the full SHA
    7639219 View commit details
    Browse the repository at this point in the history
  3. [MAINT] Catch warnings as errors on partial doc builds (nilearn#3749)

    * Suppress image not readable
    
    * Make dummy images
    
    * Warnings as errors on partial builds
    ymzayek authored Jun 13, 2023
    Configuration menu
    Copy the full SHA
    24055ec View commit details
    Browse the repository at this point in the history
  4. [FIX] force ordered output of _sanitize_reorder to match regex in t…

    …est (nilearn#3751)
    
    * use list as order matters
    
    * simplify regex
    
    * use list
    
    * prettify error message
    Remi-Gau authored Jun 13, 2023
    Configuration menu
    Copy the full SHA
    2e9344d View commit details
    Browse the repository at this point in the history

Commits on Jun 14, 2023

  1. [MAINT] run isort and flake8 on the whole nilearn code base in CI (ni…

    …learn#3651)
    
    * check all of nilean with isort and flake8
    
    * isort fixes
    
    * fix isort and flaek8 issues
    
    * update config
    
    * isort fixes
    
    * update config
    
    * pre commit run all
    
    * fix remaining isort issues
    
    * fix import in examples
    
    * fix yaml
    
    * fix toml
    
    * update examples 1
    
    * silence flaek8 errors about black making changes
    
    * flake8
    
    * flake8
    Remi-Gau authored Jun 14, 2023
    Configuration menu
    Copy the full SHA
    4493330 View commit details
    Browse the repository at this point in the history
  2. [FIX] find confounds even when BIDS derivatives bold files contain re…

    …s or den entities (nilearn#3742)
    
    * make tests more stringent
    
    * fix
    
    * flake8
    
    * update changelog
    
    * update codespell config to catch more errors via pre-commit
    
    * Update doc/changes/latest.rst
    
    Co-authored-by: Yasmin <[email protected]>
    
    * use private function
    
    * flake8 fix
    
    * deal with regex
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Remi-Gau and ymzayek authored Jun 14, 2023
    Configuration menu
    Copy the full SHA
    f16dcb4 View commit details
    Browse the repository at this point in the history

Commits on Jun 19, 2023

  1. pre-commit hooks auto-update (nilearn#3764)

    Co-authored-by: Remi-Gau <[email protected]>
    github-actions[bot] and Remi-Gau authored Jun 19, 2023
    Configuration menu
    Copy the full SHA
    b2562d6 View commit details
    Browse the repository at this point in the history
  2. [DOC] update changelog and git blame ignore (nilearn#3755)

    * update git-blame-ignore
    
    * update changelog
    
    * fix
    
    * update ignore
    
    * fix regex escape
    
    * flake8
    
    * use list and not set
    
    * simplify rev file
    
    * rm spaces
    
    * pragmatism wins
    
    * rm import
    
    * reset plotting files
    Remi-Gau authored Jun 19, 2023
    Configuration menu
    Copy the full SHA
    ee09dce View commit details
    Browse the repository at this point in the history
  3. [FIX] Change error string to match scikit-learn `InvalidParameterErro…

    …r` message (nilearn#3763)
    
    * Modify ValueError string
    
    * Warning based on sklearn version
    ymzayek authored Jun 19, 2023
    Configuration menu
    Copy the full SHA
    bfc435a View commit details
    Browse the repository at this point in the history
  4. Configuration menu
    Copy the full SHA
    20fc25b View commit details
    Browse the repository at this point in the history
  5. Configuration menu
    Copy the full SHA
    246e72e View commit details
    Browse the repository at this point in the history
  6. [MAINT] refactor nilearn/datasets (sourcery, f-strings) (nilearn#3727)

    * apply flynt
    
    * apply sourcery
    
    * apply sourcery
    
    * apply sourcery
    
    * apply sourcery
    
    * apply sourcery
    
    * refactor tests
    
    * refactor tests
    
    * refactor f strings
    
    * avoid casting to string
    
    * rm walrus
    
    * refactor tests
    Remi-Gau authored Jun 19, 2023
    Configuration menu
    Copy the full SHA
    bb59d69 View commit details
    Browse the repository at this point in the history

Commits on Jun 20, 2023

  1. [MAINT] add workflow to check for f strings (nilearn#3759)

    * add workflow for flynt
    
    * configure and run flynt
    
    * flake8
    
    * Update .github/workflows/f_strings.yml
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update nilearn/_utils/data_gen.py
    
    Co-authored-by: bthirion <[email protected]>
    
    * pre-commit hooks auto-update (nilearn#3764)
    
    Co-authored-by: Remi-Gau <[email protected]>
    
    * [DOC] update changelog and git blame ignore (nilearn#3755)
    
    * update git-blame-ignore
    
    * update changelog
    
    * fix
    
    * update ignore
    
    * fix regex escape
    
    * flake8
    
    * use list and not set
    
    * simplify rev file
    
    * rm spaces
    
    * pragmatism wins
    
    * rm import
    
    * reset plotting files
    
    * [FIX] Change error string to match scikit-learn `InvalidParameterError` message (nilearn#3763)
    
    * Modify ValueError string
    
    * Warning based on sklearn version
    
    * relax regex for warning on sanitize reorder error (nilearn#3766)
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Co-authored-by: bthirion <[email protected]>
    Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
    Co-authored-by: Remi-Gau <[email protected]>
    5 people authored Jun 20, 2023
    Configuration menu
    Copy the full SHA
    88b4232 View commit details
    Browse the repository at this point in the history
  2. [DOC] Remove license and hide authors in examples (nilearn#3765)

    * rm license and hide authors
    
    * comment more authors
    
    * clean up
    
    * flake8 fix
    
    * rm obsolete addresses
    Remi-Gau authored Jun 20, 2023
    Configuration menu
    Copy the full SHA
    bf0f6e4 View commit details
    Browse the repository at this point in the history
  3. [MAINT] refactor nilearn/plotting (f-strings) (nilearn#3757)

    * convert to f strings
    
    * use fstrings
    
    * fix more f strings
    
    * remove last format and %
    Remi-Gau authored Jun 20, 2023
    Configuration menu
    Copy the full SHA
    6a576e5 View commit details
    Browse the repository at this point in the history
  4. [MAINT] remove test install with python 2.7 workflow (nilearn#3768)

    * try a github workflow to test install
    
    * rm test in azure and gh
    Remi-Gau authored Jun 20, 2023
    Configuration menu
    Copy the full SHA
    06375b9 View commit details
    Browse the repository at this point in the history

Commits on Jun 21, 2023

  1. [REF] fix f strings (nilearn#3770)

    * fix fstrings in examples
    
    * fix more f strings
    
    * fix typo
    
    * do not use join on int
    
    * fix more f strings
    
    * fix more f strings
    
    * fix format
    
    * fix
    Remi-Gau authored Jun 21, 2023
    Configuration menu
    Copy the full SHA
    a03175b View commit details
    Browse the repository at this point in the history

Commits on Jun 23, 2023

  1. [ENH][DOC] Fix inconsistent description of return keys for fetch_atla…

    …s_surf_destrieux (nilearn#3774)
    
    * enhancement: [DOC] Inconsistent description of return keys for fetch_atlas_surf_destrieux
    
    * updated my contribution info to names.rst and latest.rst file
    
    * Update latest.rst
    
    * modified the description of changes and placed my info accordingly
    SamantaTarun authored Jun 23, 2023
    Configuration menu
    Copy the full SHA
    e6fc4f9 View commit details
    Browse the repository at this point in the history

Commits on Jun 26, 2023

  1. [MAINT] add lint recipe to make file (nilearn#3758)

    * add lint recipe
    
    * add flynt to recipe
    
    * rm comment
    Remi-Gau authored Jun 26, 2023
    Configuration menu
    Copy the full SHA
    c90bf61 View commit details
    Browse the repository at this point in the history

Commits on Jun 27, 2023

  1. [MAINT] Update config black and pre-commit (nilearn#3777)

    * update black config
    
    * apply black
    
    * apply black to init files
    
    * update config
    
    * update config
    Remi-Gau authored Jun 27, 2023
    Configuration menu
    Copy the full SHA
    caa8da8 View commit details
    Browse the repository at this point in the history

Commits on Jun 28, 2023

  1. [MAINT] test install and run windows tests with github actions (nilea…

    …rn#3780)
    
    * try testing install with gh
    
    * try testing on windows
    
    * cancel previous test install workflows
    
    * rm azure pipeline tests
    
    * rm azure badge
    
    * update doc
    Remi-Gau authored Jun 28, 2023
    Configuration menu
    Copy the full SHA
    7d91e88 View commit details
    Browse the repository at this point in the history
  2. Fix syntax (nilearn#3786)

    ymzayek authored Jun 28, 2023
    Configuration menu
    Copy the full SHA
    7778b8f View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    11bb420 View commit details
    Browse the repository at this point in the history
  4. Configuration menu
    Copy the full SHA
    43ff123 View commit details
    Browse the repository at this point in the history

Commits on Jun 29, 2023

  1. [DOC] Fix position of plots in relation to code blocks (nilearn#3788)

    * Fix one example
    
    * Fix the rest
    ymzayek authored Jun 29, 2023
    Configuration menu
    Copy the full SHA
    a85b023 View commit details
    Browse the repository at this point in the history
  2. [INFRA] Add trigger to build specific examples on a push in pull requ…

    …ests (nilearn#3762)
    
    * Build individual example commit message
    
    * Add make command to build by directory
    
    * Add examples base path
    
    * Add build directory logic
    
    * Add patter
    
    * Fix match pattern
    
    * Fix directory matching
    
    * Limit first 2 digits to match dirs
    
    * [examples] plot_nilearn_101.py
    
    * [examples] 00
    
    * Correct build command name
    
    * [examples] 00
    
    * [examples] 00_tutorials
    
    * Build only specific example option
    
    * [example] plot_nilearn_101.py
    
    * Add to workflows README
    
    * Build modified examples plus called one
    
    * [example] plot_nilearn_101.py
    
    * [example] plot_nilearn_101.py
    
    * Improve
    
    * [example] plot_nilearn_101.py
    
    * [example] plot_nilearn_101.py
    
    * [UNDO] test original modified examples trigger still works
    
    * [example] plot_python_101.py
    
    * Undo change for testing
    ymzayek authored Jun 29, 2023
    Configuration menu
    Copy the full SHA
    be0e9b3 View commit details
    Browse the repository at this point in the history
  3. [REF] Fix more f strings (nilearn#3776)

    * f stringify
    
    * f strings in examples
    
    * f string fix
    
    * fix f strings
    
    * Update pyproject.toml
    
    * [MAINT] test install and run windows tests with github actions (nilearn#3780)
    
    * try testing install with gh
    
    * try testing on windows
    
    * cancel previous test install workflows
    
    * rm azure pipeline tests
    
    * rm azure badge
    
    * update doc
    
    * Update examples/04_glm_first_level/plot_localizer_surface_analysis.py
    
    Co-authored-by: bthirion <[email protected]>
    
    ---------
    
    Co-authored-by: bthirion <[email protected]>
    Remi-Gau and bthirion authored Jun 29, 2023
    Configuration menu
    Copy the full SHA
    ee21258 View commit details
    Browse the repository at this point in the history
  4. [FIX] address flaky tests in CI (nilearn#3785)

    * remove duplicate tests
    
    * skip test for now
    
    * only skip test
    
    * silence more tests
    
    * ignore all parcellations tests
    
    * skip one more test
    
    * only run parcellation tests
    
    * refactor tests
    
    * reintroduce test
    
    * reintroduce test
    
    * bring yet another test back in
    
    * switch ubuntu version for doc
    
    * test on all
    
    * use latet
    Remi-Gau authored Jun 29, 2023
    Configuration menu
    Copy the full SHA
    089a1a0 View commit details
    Browse the repository at this point in the history

Commits on Jun 30, 2023

  1. [FMT] apply black nilearn.plotting.display (nilearn#3790)

    * blakc nilearn.plotting.display
    
    * Update nilearn/plotting/displays/_figures.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update nilearn/plotting/displays/_figures.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update nilearn/plotting/displays/_figures.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update nilearn/plotting/displays/_slicers.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update nilearn/plotting/displays/_slicers.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * black
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Remi-Gau and ymzayek authored Jun 30, 2023
    Configuration menu
    Copy the full SHA
    186845c View commit details
    Browse the repository at this point in the history

Commits on Jul 3, 2023

  1. Configuration menu
    Copy the full SHA
    9356227 View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    cd962a0 View commit details
    Browse the repository at this point in the history

Commits on Jul 4, 2023

  1. Adding keep_masked_labels parameter to Labels_masker (nilearn#3722)

    * adding keep_masked_labels param
    
    * add deprecation warning
    
    * add stacklevel to Deprecation warning
    
    * improve warning message and docstring
    
    * raise a warning when labels are removed
    
    * minor update in warning message
    
    * make warning shorter
    
    * minor change
    
    * update doc
    
    * run black
    
    * update warning message
    
    * test new warnings
    
    * add new assertions to test_signal_extraction
    mtorabi59 authored Jul 4, 2023
    Configuration menu
    Copy the full SHA
    8ee74d3 View commit details
    Browse the repository at this point in the history
  2. [FMT] apply black to maskers - part 1 (nilearn#3795)

    * apply black
    
    * black
    
    * black
    
    * black
    
    * black
    
    * black
    
    * rm comma
    Remi-Gau authored Jul 4, 2023
    Configuration menu
    Copy the full SHA
    aece81b View commit details
    Browse the repository at this point in the history
  3. [ENH] use citation.cff to store affiliations of authors (nilearn#3754)

    * basic citation file
    
    * add other authors
    
    * add orcid
    
    * add links to doc - [skip ci]
    
    * basic script
    
    * update citation cff
    
    * sort citation authors
    
    * add missing authors
    
    * fix authors
    
    * update AUTHORS.rst
    
    * add some affiliations
    
    * fix
    
    * add workflow to automate file changes
    
    * add header
    
    * add doc
    
    * update doc
    
    * fix
    
    * update files before doc build
    
    * update doc
    
    * fix name of lexer
    Remi-Gau authored Jul 4, 2023
    Configuration menu
    Copy the full SHA
    c8cd50f View commit details
    Browse the repository at this point in the history
  4. [FMT] apply black to plotting - part 1 (nilearn#3802)

    * apply black to plotting
    
    * apply black to plotting
    
    * apply black to plotting
    
    * apply black to plotting
    
    * apply black to plotting
    
    * apply black to plotting
    
    * apply black to plotting
    
    * Update nilearn/plotting/html_document.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Remi-Gau and ymzayek authored Jul 4, 2023
    Configuration menu
    Copy the full SHA
    90dd16e View commit details
    Browse the repository at this point in the history

Commits on Jul 5, 2023

  1. Configuration menu
    Copy the full SHA
    36b4725 View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    8a7a80c View commit details
    Browse the repository at this point in the history
  3. [MAINT] deal with new warnings related to sklearn 1.3 (nilearn#3801)

    * set dual defaults for LinearSVC
    
    * silence more warnings
    
    * [full doc] request full build
    
    * use default
    
    * deal with warnings in searchlight
    
    * silence more warnings
    
    * [full doc] request full build
    
    * fix tet
    
    * change arg name
    
    * rm args to be deprecated
    Remi-Gau authored Jul 5, 2023
    Configuration menu
    Copy the full SHA
    1b11edf View commit details
    Browse the repository at this point in the history
  4. [FMT] apply black to maskers - part 2 (nilearn#3803)

    * apply black
    
    * apply black
    
    * apply black
    
    * apply black
    
    * Update nilearn/maskers/tests/test_nifti_masker.py
    
    * apply black
    
    * Apply suggestions from code review
    
    Co-authored-by: Yasmin <[email protected]>
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Remi-Gau and ymzayek authored Jul 5, 2023
    Configuration menu
    Copy the full SHA
    3f2628f View commit details
    Browse the repository at this point in the history
  5. [FIX] Make load_confounds' confounds file selection more generic (nil…

    …earn#3794)
    
    * Make load_confounds more general.
    
    * Start working on tests.
    
    * Fix f-string.
    
    * Run black.
    
    * Fix the function.
    
    * Expand test cases.
    
    * Make test fail with original code.
    
    * Fix things more.
    
    * Update test_load_confounds_utils.py
    
    * Update load_confounds_utils.py
    
    * Add whatsnew entry.
    
    * Address review.
    
    * Update nilearn/interfaces/fmriprep/tests/test_load_confounds_utils.py
    
    Co-authored-by: Hao-Ting Wang <[email protected]>
    
    * Update nilearn/interfaces/fmriprep/tests/test_load_confounds_utils.py
    
    * Fix style.
    
    * Update nilearn/interfaces/fmriprep/tests/test_load_confounds_utils.py
    
    * Fix test.
    
    * Update test_load_confounds_utils.py
    
    ---------
    
    Co-authored-by: Hao-Ting Wang <[email protected]>
    Co-authored-by: Remi Gau <[email protected]>
    3 people authored Jul 5, 2023
    Configuration menu
    Copy the full SHA
    e65624b View commit details
    Browse the repository at this point in the history
  6. [FMT] apply black to plotting - part 2 (nilearn#3810)

    * apply black
    
    * apply black
    
    * Apply suggestions from code review
    
    * fixes extra spaces from black
    
    * Apply suggestions from code review
    Remi-Gau authored Jul 5, 2023
    Configuration menu
    Copy the full SHA
    787d662 View commit details
    Browse the repository at this point in the history

Commits on Jul 6, 2023

  1. [FIX] improve warnings in building glm from BIDS (nilearn#3811)

    * fix warning
    
    * rm trailing white space
    
    * flake8
    
    * update changelog
    Remi-Gau authored Jul 6, 2023
    Configuration menu
    Copy the full SHA
    bce754b View commit details
    Browse the repository at this point in the history

Commits on Jul 7, 2023

  1. [FIX] fix loading of confounds for giftis (nilearn#3819)

    * fake bids data creates gifti files
    
    * reproduce bug
    
    * fix
    
    * lint
    
    * improve doc
    
    * update codespell config
    
    * fix doc
    
    * update doc string
    
    * flake8
    Remi-Gau authored Jul 7, 2023
    Configuration menu
    Copy the full SHA
    7295b41 View commit details
    Browse the repository at this point in the history

Commits on Jul 8, 2023

  1. Configuration menu
    Copy the full SHA
    d2dc791 View commit details
    Browse the repository at this point in the history
  2. [MAINT] Set nilearn version input in bug issue template to text area (n…

    …ilearn#3820)
    
    * Change nilearn version to textarea
    
    * Change example versions to x.y.z
    ymzayek authored Jul 8, 2023
    Configuration menu
    Copy the full SHA
    021255c View commit details
    Browse the repository at this point in the history
  3. add keep_masked_maps to NiftiMapsMasker (nilearn#3732)

    * add keep_masked_maps to NiftiMapsMasker
    
    * add stacklevel to deprecation warning
    
    * improve warning message and docstring
    
    * raise warning when maps are removed
    
    * make warning shorter
    
    * minor change
    
    * minor change
    
    * update doc
    
    * run black
    
    * update warning message
    
    * fix isort and flake8
    
    * change the warning message
    
    * minor formatting
    mtorabi59 authored Jul 8, 2023
    Configuration menu
    Copy the full SHA
    95086d8 View commit details
    Browse the repository at this point in the history
  4. [FMT] apply black to plotting - part 3 (nilearn#3827)

    * apply black
    
    * apply black
    
    * apply black
    
    * fix
    Remi-Gau authored Jul 8, 2023
    Configuration menu
    Copy the full SHA
    ea375e0 View commit details
    Browse the repository at this point in the history
  5. [DOC] move defaults in docs.py (nilearn#3621)

    * update contributing
    
    * multiline docstring
    
    * update defaults
    
    * flake8
    
    * Apply suggestions from code review
    
    * Update CONTRIBUTING.rst
    
    Co-authored-by: bthirion <[email protected]>
    
    * Apply suggestions from code review
    
    Co-authored-by: Yasmin <[email protected]>
    
    * fix
    
    * move default
    
    * add defaults
    
    * use single backtick
    
    * use single backtick
    
    * Update CONTRIBUTING.rst
    
    Co-authored-by: bthirion <[email protected]>
    
    * sort alphabetically
    
    * fix warnings
    
    * reorder
    
    * move default
    
    * fix doc build
    
    ---------
    
    Co-authored-by: bthirion <[email protected]>
    Co-authored-by: Yasmin <[email protected]>
    3 people authored Jul 8, 2023
    Configuration menu
    Copy the full SHA
    8c62868 View commit details
    Browse the repository at this point in the history

Commits on Jul 9, 2023

  1. [FMT] apply black to plotting - part 4 (nilearn#3833)

    * apply black
    
    * remove extra space
    Remi-Gau authored Jul 9, 2023
    Configuration menu
    Copy the full SHA
    34613ab View commit details
    Browse the repository at this point in the history
  2. [DOC] remove single occurence from docs.py (nilearn#3834)

    * bg_on_data
    
    * rm single occurence from docs.py
    Remi-Gau authored Jul 9, 2023
    Configuration menu
    Copy the full SHA
    27fadc1 View commit details
    Browse the repository at this point in the history
  3. [FIX] refactor second-level tests (nilearn#3814)

    * refactor tests
    
    * flake8
    
    * refator
    
    * rm riles
    
    * rm failing tests for now
    
    * further refactoring
    
    * Apply suggestions from code review
    
    Co-authored-by: bthirion <[email protected]>
    
    * fix failing test
    
    * flake8
    
    ---------
    
    Co-authored-by: bthirion <[email protected]>
    Remi-Gau and bthirion authored Jul 9, 2023
    Configuration menu
    Copy the full SHA
    44ba24b View commit details
    Browse the repository at this point in the history
  4. [FMT] apply black (nilearn#3836)

    * apply black
    
    * rm extra spaces
    Remi-Gau authored Jul 9, 2023
    Configuration menu
    Copy the full SHA
    1b8c6ed View commit details
    Browse the repository at this point in the history

Commits on Jul 10, 2023

  1. pre-commit hooks auto-update (nilearn#3837)

    Co-authored-by: Remi-Gau <[email protected]>
    github-actions[bot] and Remi-Gau authored Jul 10, 2023
    Configuration menu
    Copy the full SHA
    01cfa3d View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    48a74fb View commit details
    Browse the repository at this point in the history
  3. [FIX] Fix long titles overlapping plot contents (nilearn#3797)

    * Increase default figsize
    
    * [full doc] test plots
    
    * [full doc] Increase ortho a bit more
    
    * Fix formatting
    
    * [full doc] Change default figsize of projectors
    
    * [full doc] build examples
    
    * [full doc] Increase ortho slicer a bit more
    
    * Increase r projector
    
    * Add whatsnew
    ymzayek authored Jul 10, 2023
    Configuration menu
    Copy the full SHA
    4f67c91 View commit details
    Browse the repository at this point in the history
  4. Configuration menu
    Copy the full SHA
    d505aa1 View commit details
    Browse the repository at this point in the history
  5. [MAINT] Removed all mentions of "License" from headers (nilearn#3838)

    * Removed all mentions of "License" from header as raised in issue nilearn#3771
    
    * Added entry in doc/changes/latest.rst
    
    * Added period at the end of comment that failed flake
    
    * Added my name to CITATION.cff
    
    ---------
    
    Co-authored-by: czarina.sy <[email protected]>
    czarinasy and czarina.sy authored Jul 10, 2023
    Configuration menu
    Copy the full SHA
    4e2bd91 View commit details
    Browse the repository at this point in the history
  6. Configuration menu
    Copy the full SHA
    d38e49d View commit details
    Browse the repository at this point in the history
  7. [REF] refactor filename building in tests for interfaces/fmriprep (ni…

    …learn#3831)
    
    * [DATALAD] Recorded changes
    
    * refactor
    
    * lint
    
    * set some defaults
    
    * fix
    
    * fix name
    Remi-Gau authored Jul 10, 2023
    Configuration menu
    Copy the full SHA
    54fe838 View commit details
    Browse the repository at this point in the history

Commits on Jul 11, 2023

  1. [MAINT] Update some missed tests and examples to use new standardize …

    …strategy to silence warnings (nilearn#3821)
    
    * Update more tests
    
    * [full doc] Update examples
    
    * [full doc] Delete repeated tests
    
    * Change almost equal decimal points
    
    * Update spheres maskers standardization test
    
    * Ignore warning configuration
    
    * Revert unnessary changes
    
    * Formatting
    
    * Change last tests
    ymzayek authored Jul 11, 2023
    Configuration menu
    Copy the full SHA
    39c6dcb View commit details
    Browse the repository at this point in the history

Commits on Jul 12, 2023

  1. FIX allow confound files with no cosine (nilearn#3816)

    * FIX allow confound files with no cosine
    
    Also some code refectoring
    - concentrate most of the missing regressor and missing strategy key
      word catching to `load_confounds_components`
    - consistency of internal and user facing strategy key for ica-aroma
      (only using ica_aroma, instead of ica_aroma and aroma)
    - Add unit test for confound components loading and ensure consistent
      error catching
    
    * apply pre-commit checks..
    
    * Update doc/changes/latest.rst
    
    Co-authored-by: Remi Gau <[email protected]>
    
    * TEST `high_pass` should perform differently
    
    - `high_pass`: when no cosine regressors presents, don't raise error
    - everything else should raise error
    
    * Update latest.rst
    
    PR number
    
    ---------
    
    Co-authored-by: Remi Gau <[email protected]>
    htwangtw and Remi-Gau authored Jul 12, 2023
    Configuration menu
    Copy the full SHA
    b7e7e86 View commit details
    Browse the repository at this point in the history
  2. [MAINT] update gitblame ignore and contributing (nilearn#3842)

    * update gitblameignore
    
    * update contributing
    
    * update doc
    
    * update changelog
    
    * Update CONTRIBUTING.rst
    
    Co-authored-by: Yasmin <[email protected]>
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Remi-Gau and ymzayek authored Jul 12, 2023
    Configuration menu
    Copy the full SHA
    91218eb View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    7d957cc View commit details
    Browse the repository at this point in the history

Commits on Jul 14, 2023

  1. [DOC] Fix rendering of plots in some examples where titles or images …

    …are cut off (nilearn#3753)
    
    * Test one plot
    
    * Apply to second plot
    
    * Change y position of title
    
    * Change multi line title to one line
    
    * Move legend and title too long
    
    * Fig sizes for long titles
    
    * Fix plot_haxby_different_estimators
    
    * Fix y position of titles
    
    * Custom figsizes
    
    * Update examples/01_plotting/plot_demo_more_plotting.py
    
    Co-authored-by: Remi Gau <[email protected]>
    
    * Move import
    
    * Add whatsnew
    
    ---------
    
    Co-authored-by: Remi Gau <[email protected]>
    ymzayek and Remi-Gau authored Jul 14, 2023
    Configuration menu
    Copy the full SHA
    e23baad View commit details
    Browse the repository at this point in the history

Commits on Jul 17, 2023

  1. pre-commit hooks auto-update (nilearn#3843)

    Co-authored-by: Remi-Gau <[email protected]>
    github-actions[bot] and Remi-Gau authored Jul 17, 2023
    Configuration menu
    Copy the full SHA
    ef66712 View commit details
    Browse the repository at this point in the history

Commits on Jul 19, 2023

  1. Configuration menu
    Copy the full SHA
    a037b03 View commit details
    Browse the repository at this point in the history
  2. Update nilearn/experimental/surface/_plotting.py

    Co-authored-by: Yasmin <[email protected]>
    jeromedockes and ymzayek authored Jul 19, 2023
    Configuration menu
    Copy the full SHA
    5aa9523 View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    c6e1ff4 View commit details
    Browse the repository at this point in the history
  4. Configuration menu
    Copy the full SHA
    150b530 View commit details
    Browse the repository at this point in the history
  5. Configuration menu
    Copy the full SHA
    a11d594 View commit details
    Browse the repository at this point in the history
  6. Configuration menu
    Copy the full SHA
    d876528 View commit details
    Browse the repository at this point in the history
  7. Configuration menu
    Copy the full SHA
    ab00401 View commit details
    Browse the repository at this point in the history
  8. Configuration menu
    Copy the full SHA
    b9a2a82 View commit details
    Browse the repository at this point in the history
  9. Configuration menu
    Copy the full SHA
    e002d24 View commit details
    Browse the repository at this point in the history

Commits on Jul 21, 2023

  1. [DOC] replace skipped doctests with default code-blocks (nilearn#3858)

    * replace skipped doctests with default code-blocks
    
    * remove ellipses in new code-blocks and tidy spacing
    
    * update changelog and add Patrick Sadil to contributors
    psadil authored Jul 21, 2023
    Configuration menu
    Copy the full SHA
    8eb730e View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    8296452 View commit details
    Browse the repository at this point in the history
  3. [MAINT] add warning to deprecate darkness (nilearn#3855)

    * add warning to deprecate darkness
    
    * deprecate darkness import isort
    
    * Add change to latest.rst
    
    * Add name to CITATION.cff
    
    * Add name to AUTHORS.rst
    
    * deprecate darkness in html_surface.py
    
    * Change syntax for reference to functions in doc/changes/latest.rst
    
    Co-authored-by: Yasmin <[email protected]>
    
    * switch UserWarning to eprecationWarning
    
    Co-authored-by: Yasmin <[email protected]>
    
    * add comma
    
    Co-authored-by: Yasmin <[email protected]>
    
    * switch UserWarning to DeprecationWarning
    
    Co-authored-by: Yasmin <[email protected]>
    
    * add comma
    
    Co-authored-by: Yasmin <[email protected]>
    
    ---------
    
    Co-authored-by: Alisha Kodibagkar <[email protected]>
    Co-authored-by: Yasmin <[email protected]>
    Co-authored-by: Remi Gau <[email protected]>
    4 people authored Jul 21, 2023
    Configuration menu
    Copy the full SHA
    0bd6740 View commit details
    Browse the repository at this point in the history
  4. [REF] refactor test with error raising (nilearn#3854)

    * refactor test with error raising
    
    * undo black formatting on specific files
    
    * add changes to latest.rst and author to CITATION.cff
    
    * make flake8 happy
    
    * make flake8 happier
    
    * make flake8 sparkle joy
    
    * flake8 I promise I will make you smile again
    
    ---------
    
    Co-authored-by: Remi Gau <[email protected]>
    FrancoisPgm and Remi-Gau authored Jul 21, 2023
    Configuration menu
    Copy the full SHA
    13fad00 View commit details
    Browse the repository at this point in the history
  5. Configuration menu
    Copy the full SHA
    de53cf1 View commit details
    Browse the repository at this point in the history

Commits on Jul 22, 2023

  1. [DOC] update doc to mention how get all the tags from upstream to get…

    … the proper version displayed (nilearn#3851)
    
    * update doc
    
    * move section
    
    * fix indent
    
    * fix rst
    
    * fixes
    Remi-Gau authored Jul 22, 2023
    Configuration menu
    Copy the full SHA
    acadffa View commit details
    Browse the repository at this point in the history

Commits on Jul 23, 2023

  1. [FIX] transparent vertices in surf_plotting function (nilearn#3860)

    * [FIX] transparent vertices in `surf_plotting` function with matplotlib engine.
    
    * [ADD] change for PR#3860.
    
    * [ADD] infos for citation.
    
    * Update doc/changes/latest.rst
    
    Fix Sphinx formatting.
    
    Co-authored-by: Yasmin <[email protected]>
    
    * [FIX] merge conflict.
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    mathdugre and ymzayek authored Jul 23, 2023
    Configuration menu
    Copy the full SHA
    069980c View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    318a0f7 View commit details
    Browse the repository at this point in the history
  3. [DOC] First pass on adding cross-refence links surface module (nilear…

    …n#3857)
    
    * First pass on adding cross-ref for surface module
    
    * Apply suggestions from code review
    
    Co-authored-by: Yasmin <[email protected]>
    
    * manually fix some flake8 issue
    
    * Update nilearn/surface/surface.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update what's new
    
    * FIX long line
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    htwangtw and ymzayek authored Jul 23, 2023
    Configuration menu
    Copy the full SHA
    4a3023f View commit details
    Browse the repository at this point in the history

Commits on Jul 26, 2023

  1. [REF] Rename html surface func to make them private (nilearn#3847)

    * Update html_surface.py
    
    updated plotting.html_surface.one_mesh_info() and plotting.html_surface.full_brain_info() should be renamed to plotting.html_surface._one_mesh_info() and plotting.html_surface._full_brain_info() based on https://github.com/orgs/nilearn/projects/6/views/2?pane=issue&itemId=31373632
    
    * Update surface.py
    
    changed example comment to fit renaming of full_brain_info() to _full_brain_info()
    
    * Update html_surface.py
    
    Line 301 and 421 called _full_brain_info and _one_mesh_info but I did not update these lines with the new function name
    
    * Update html_surface.py
    
    updated indenting of new functions to fit style guidelines
    
    * Update test_html_surface.py
    
    updated code in nilearn/plotting/tests/test_html_surface.py since I did not update the tests.
    
    * Update html_surface.py
    
    Re-added back public version of one_mesh_info() and full_brain_info() that spit out a warning and call the renamed private method, which is the exact code as the public method
    
    * Update html_surface.py
    
    Editted error messages in new public method to have full single quotes around method names e.g.  ‘full_brain_info()’ has been renamed... ‘_full_brain_info()’ and will be removed in a future version
    
    instead of full_brain_info() has been renamed... _full_brain_info() and will be removed in a future version
    
    * Update test_html_surface.py
    
    added tests to test new error warnings on methods renamed from public to private. new public method calls properly renamed private method and spits out a warning
    
    * Update test_html_surface.py
    
    in the warnings type, had UserWarning but in my code I have DeprecationWarning
    
    * Update test_html_surface.py
    
    * Update test_html_surface.py
    
    * Update html_surface.py
    
    trying to get warning to be the same
    
    * Update test_html_surface.py
    
    trying to get warning o be the same
    
    * Update html_surface.py
    
    updated warnigns to remove () since it seems like the regex match was getting stuck on that
    
    * Update test_html_surface.py
    
    updated the test too to match the right string afterremoving the () from the match phrase
    
    * Update test_html_surface.py
    
    updated messages to reflect @ymzayek suggestions
    
    * Update html_surface.py
    
    updated warnings in the code too
    
    * Update latest.rst
    
    updated changelog with renaming change
    
    * Update html_surface.py
    
    updated warnings to not extend past 80 characters per line
    
    * Update test_html_surface.py
    
    updated tests to also not have lines >80 characters
    
    * Update CITATION.cff
    
    added myself to the CITATION.cff
    
    * Update nilearn/plotting/tests/test_html_surface.py
    
    Co-authored-by: bthirion <[email protected]>
    
    * Fix flake8 and isort
    
    ---------
    
    Co-authored-by: Remi Gau <[email protected]>
    Co-authored-by: bthirion <[email protected]>
    Co-authored-by: ymzayek <[email protected]>
    4 people authored Jul 26, 2023
    Configuration menu
    Copy the full SHA
    65ded9e View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    923f766 View commit details
    Browse the repository at this point in the history

Commits on Jul 31, 2023

  1. pre-commit hooks auto-update (nilearn#3868)

    Co-authored-by: Remi-Gau <[email protected]>
    github-actions[bot] and Remi-Gau authored Jul 31, 2023
    Configuration menu
    Copy the full SHA
    dc247b5 View commit details
    Browse the repository at this point in the history
  2. [MAINT] fix flake8 (nilearn#3869)

    * fix flake8
    
    * pacify the linting gods
    Remi-Gau authored Jul 31, 2023
    Configuration menu
    Copy the full SHA
    a95149b View commit details
    Browse the repository at this point in the history

Commits on Aug 3, 2023

  1. [MRG] [ENH] Radiological view for cross-sectional MRI plotting (nilea…

    …rn#3172)
    
    * radiological view
    
    * add plotting radiological example
    
    * Update whats_new.rst
    
    * Update nilearn/plotting/displays/_axes.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update examples/01_plotting/plot_demo_plotting.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update nilearn/plotting/img_plotting.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update nilearn/plotting/img_plotting.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update nilearn/plotting/img_plotting.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update nilearn/plotting/displays/_axes.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * line removed
    
    * indent corrected
    
    * update latest.rst
    
    * Update whats_new.rst
    
    * Update nilearn/plotting/displays/_axes.py
    
    Co-authored-by: bthirion <[email protected]>
    
    * added spaces
    
    * update spacing
    
    * update formatting
    
    * added name
    
    * formatting
    
    * formatting
    
    * formatting fixes
    
    * Update _axes.py
    
    * Update docs.py
    
    * doc string shortcut
    
    * Update nilearn/_utils/docs.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update nilearn/plotting/img_plotting.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update img_plotting.py
    
    * Update docs.py
    
    * update docs
    
    * Fix merge of docs.py
    
    * Remove extra default statement
    
    * Resolve formatting issues
    
    * Add radiological argument to GlassBrainAxes
    
    * Add smoke tests for relevant plotting funcs
    
    * Remove unneeded argument
    
    * Improve testing
    
    * Update whatsnew
    
    * Change test data
    
    ---------
    
    Co-authored-by: Gensollen <[email protected]>
    Co-authored-by: bthirion <[email protected]>
    Co-authored-by: ymzayek <[email protected]>
    4 people authored Aug 3, 2023
    Configuration menu
    Copy the full SHA
    99e8530 View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    62bf848 View commit details
    Browse the repository at this point in the history
  3. [FMT] apply toml formatting hook on pyproject.toml (nilearn#3872)

    * apply toml formatting hook on pyproject.toml
    
    * 4 spaces
    Remi-Gau authored Aug 3, 2023
    Configuration menu
    Copy the full SHA
    5734dba View commit details
    Browse the repository at this point in the history

Commits on Aug 4, 2023

  1. Configuration menu
    Copy the full SHA
    17ab95c View commit details
    Browse the repository at this point in the history
  2. [INFRA] Update pull_request_template.md (nilearn#3880)

    more of cosmetic change but allows issue number AND name to be rendered directly when viewing the PR top message
    
    also removes a space before the # that I am tired of deleting for every PR
    Remi-Gau authored Aug 4, 2023
    Configuration menu
    Copy the full SHA
    7f5bab6 View commit details
    Browse the repository at this point in the history
  3. [ENH] Raise a warning if the bids events.tsv file doesn't contain col…

    …umn "trial_type" (nilearn#3597)
    
    * Update first_levels.py
    
    Added a non-member function to raise a warning if the events.tsv file doesn't contain a column named "trial_type".
    The function will be called iteratively on each pandas dataframe corresponding to events.tsv file.
    
    * Update first_level.py
    
    * Update first_level.py
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Remi Gau <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Remi Gau <[email protected]>
    
    * Update first_level.py
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Remi Gau <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Remi Gau <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Remi Gau <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Remi Gau <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Remi Gau <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Remi Gau <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Gensollen <[email protected]>
    
    * add test
    
    * update changelog
    
    * fix linter
    
    * fix name
    
    * update parameter description
    
    * lint
    
    ---------
    
    Co-authored-by: Remi Gau <[email protected]>
    Co-authored-by: Gensollen <[email protected]>
    3 people authored Aug 4, 2023
    Configuration menu
    Copy the full SHA
    b8cfa45 View commit details
    Browse the repository at this point in the history
  4. Configuration menu
    Copy the full SHA
    6e9d95a View commit details
    Browse the repository at this point in the history

Commits on Aug 5, 2023

  1. [FMT] apply yml format pre commit hook (nilearn#3877)

    * apply yml format hook
    
    * rm conda env file
    Remi-Gau authored Aug 5, 2023
    Configuration menu
    Copy the full SHA
    c9b8c7f View commit details
    Browse the repository at this point in the history
  2. [MAINT] uniformize value of MNI affine used in tests (nilearn#3882)

    * change mni affine in conftest.py: let us see how many things break
    
    * change value in tests
    
    * fix tests
    
    * refactor
    
    * fix flake8
    
    * rename function
    Remi-Gau authored Aug 5, 2023
    Configuration menu
    Copy the full SHA
    92b32f1 View commit details
    Browse the repository at this point in the history

Commits on Aug 6, 2023

  1. [MAINT] add missing dev dependencies for linting (nilearn#3888)

    * add codespell to dev dependencies for linting
    
    * add precommit to dev dependencies
    Remi-Gau authored Aug 6, 2023
    Configuration menu
    Copy the full SHA
    bf07671 View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    af36c18 View commit details
    Browse the repository at this point in the history

Commits on Aug 7, 2023

  1. [FIX] ensure that dataframes can be used as input for second level GL…

    …M (estimation and contrast) (nilearn#3879)
    
    * regression test and fix
    
    * Apply suggestions from code review
    
    * update chngelog
    
    * fix
    
    * rm test files
    
    * Apply suggestions from code review
    
    Co-authored-by: Yasmin <[email protected]>
    
    * use write_fake_bold_img
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Remi-Gau and ymzayek authored Aug 7, 2023
    Configuration menu
    Copy the full SHA
    960de1e View commit details
    Browse the repository at this point in the history
  2. [ENH] check affine and shape of first level models when passed at the…

    … second level (nilearn#3881)
    
    * check scd lvl inputs
    
    * [DATALAD] Recorded changes
    
    * fix test
    
    * [DATALAD] Recorded changes
    
    * add checks for shape
    
    * get shape
    Remi-Gau authored Aug 7, 2023
    Configuration menu
    Copy the full SHA
    387d348 View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    ded8f2a View commit details
    Browse the repository at this point in the history
  4. [MAINT] add file path param to write fake fmri data (nilearn#3892)

    * add file path param to write fake fmri data
    
    * add parameter in other function
    Remi-Gau authored Aug 7, 2023
    Configuration menu
    Copy the full SHA
    d4fec68 View commit details
    Browse the repository at this point in the history
  5. [MAINT] use tmp_path fixture in tests that do not depend on fake fmri…

    … data generation (nilearn#3893)
    
    * remove tmp dir in tests that do not depend on fake fmri data generation
    
    * break into smaller tests
    Remi-Gau authored Aug 7, 2023
    Configuration menu
    Copy the full SHA
    6379e68 View commit details
    Browse the repository at this point in the history

Commits on Aug 8, 2023

  1. [MAINT] use tmp_path in glm reporter (nilearn#3895)

    * use tmp_path in glm reporter
    
    * rm del instances
    
    * fix tests
    
    * lint
    
    * proper silencing of the falke8 errors
    Remi-Gau authored Aug 8, 2023
    Configuration menu
    Copy the full SHA
    45187e7 View commit details
    Browse the repository at this point in the history

Commits on Aug 9, 2023

  1. [MAINT] use tmp_path in tests for first lvl GLM (nilearn#3894)

    * use tmp_path in tests first lvl
    
    * refactor tests
    Remi-Gau authored Aug 9, 2023
    Configuration menu
    Copy the full SHA
    6fe4c71 View commit details
    Browse the repository at this point in the history

Commits on Aug 10, 2023

  1. [DOC] Add docstrings for some bigger private functions in `load_confo…

    …unds.` (nilearn#3863)
    
    * Add docstrings for some bigger private functions
    
    With the help of copilot.
    
    * Apply suggestions from code review
    
    Co-authored-by: bthirion <[email protected]>
    
    * Add cross-reference links to type definitions
    
    * Docstring for compcor related private function
    
    * Apply suggestions from code review
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Apply suggestions from code review
    
    Co-authored-by: bthirion <[email protected]>
    
    * Simplify docstring
    
    - remove outdated one-hot encoder related description
    - remove options from parameter descriptions, replaced with default
      option
    - remove redundant default option descriptions in the docstring
    
    * omissed out the default value of scrubbing
    
    * Complete all the docstring
    
    co-authored by GitHub Co-pilot.
    
    * Apply suggestions from code review
    
    Co-authored-by: Yasmin <[email protected]>
    
    ---------
    
    Co-authored-by: bthirion <[email protected]>
    Co-authored-by: Yasmin <[email protected]>
    3 people authored Aug 10, 2023
    Configuration menu
    Copy the full SHA
    ab8eae6 View commit details
    Browse the repository at this point in the history
  2. [Fix] Fix pathlib.Path not being counted as Niimg-like in new_image_l…

    …ike (nilearn#3723)
    
    * Fix pathlib.Path not being counted as Niimg-like
    
    * Fix unnecessarily changing mean_img
    
    * Change isinstance check to stringify_path
    
    * Add unit test for acceptance of pathlib.Path as image
    
    * Add name to citation
    
    * Update CITATION.cff
    
    * Update doc/changes/latest.rst
    
    * Update nilearn/image/tests/test_image.py
    
    * Fix flake8
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Co-authored-by: ymzayek <[email protected]>
    3 people authored Aug 10, 2023
    Configuration menu
    Copy the full SHA
    438d243 View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    4572d65 View commit details
    Browse the repository at this point in the history
  4. [INFRA] Prevent Actions workflows from running on people's forks (nil…

    …earn#3900)
    
    * Prevent CI workflows from running on forks
    
    * Leave for short workflows
    
    * Update .github/workflows/isort.yml
    
    * Missed some in testing.yml
    
    ---------
    
    Co-authored-by: Remi Gau <[email protected]>
    ymzayek and Remi-Gau authored Aug 10, 2023
    Configuration menu
    Copy the full SHA
    87efd91 View commit details
    Browse the repository at this point in the history
  5. [MAINT] remove obsolete version comparison (nilearn#3883)

    * rm obsolete version comparison
    
    * silence warnings for scipy
    
    * remove special handling in slicer for old version of matplotlib
    
    * more fixes
    
    * revert
    
    * revert
    
    * rm comments
    
    * flake8
    
    * add test
    Remi-Gau authored Aug 10, 2023
    Configuration menu
    Copy the full SHA
    48aecfa View commit details
    Browse the repository at this point in the history

Commits on Aug 17, 2023

  1. [ENH] Add LassoCV to nilearn.decoding.DecoderRegressor (nilearn#3781

    )
    
    * add LassoCV to DecoderRegressor
    
    * update decoder tests
    
    * add 'lasso'/'lasso_regressor' to regressor options
    
    * update changelog entry
    
    * use n_alphas=30 as default instead of 100
    
    * add lasso regression decoding to example
    
    * fix formatting in example
    
    * add lasso(_regressor) to list of estimators in docs
    
    * revert example
    
    * fix formatting
    michellewang authored Aug 17, 2023
    Configuration menu
    Copy the full SHA
    b7a7adf View commit details
    Browse the repository at this point in the history
  2. [MAINT] Fix failing tests in prerelease job due to deprecation and bu…

    …g in matplotlib 3.8.0rc1 (nilearn#3902)
    
    * Fix plot_carpet
    
    * Add version conditional for new method
    
    * isort
    
    * Modify test for mpl bug
    ymzayek authored Aug 17, 2023
    Configuration menu
    Copy the full SHA
    7ed210a View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    082d260 View commit details
    Browse the repository at this point in the history

Commits on Aug 18, 2023

  1. [FIX] Fix overlapping titles for plot_matrix function (nilearn#3899)

    * Simplify add title
    
    * [full doc] build examples
    
    * Update test
    ymzayek authored Aug 18, 2023
    Configuration menu
    Copy the full SHA
    058adcd View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    fd75801 View commit details
    Browse the repository at this point in the history

Commits on Aug 21, 2023

  1. [MAINT] use tmp_path in scd lvl tests (nilearn#3896)

    * use tmp_path in scd lvl tests
    
    * refactor
    
    * fix
    Remi-Gau authored Aug 21, 2023
    Configuration menu
    Copy the full SHA
    67f5f81 View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    f7580ec View commit details
    Browse the repository at this point in the history
  3. [MAINT] apply black to nilearn.masking.py (nilearn#3907)

    * apply black to masking
    
    * update config
    Remi-Gau authored Aug 21, 2023
    Configuration menu
    Copy the full SHA
    81b4069 View commit details
    Browse the repository at this point in the history

Commits on Aug 22, 2023

  1. [MAINT] apply black to tests nilean.signal.py (nilearn#3908)

    * apply black to tests signal
    
    * update config
    
    * Update nilearn/tests/test_signal.py
    
    Co-authored-by: bthirion <[email protected]>
    
    ---------
    
    Co-authored-by: bthirion <[email protected]>
    Remi-Gau and bthirion authored Aug 22, 2023
    Configuration menu
    Copy the full SHA
    84984de View commit details
    Browse the repository at this point in the history
  2. [ENH]: Move func _mix_colormaps (nilearn#3919)

    * Move func _mix_colormaps
    
    * Fix isort and black
    
    * Add to latest
    
    * Clean commit
    
    * Fix doc
    
    ---------
    
    Co-authored-by: achamma <[email protected]>
    achamma723 and achamma authored Aug 22, 2023
    Configuration menu
    Copy the full SHA
    0d70562 View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    8b05ece View commit details
    Browse the repository at this point in the history
  4. [MAINT] apply black to glm.first_level.first_level (nilearn#3909)

    * apply black to glm
    
    * update config
    
    * update config
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    * Update nilearn/glm/first_level/first_level.py
    
    Co-authored-by: Yasmin <[email protected]>
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Remi-Gau and ymzayek authored Aug 22, 2023
    Configuration menu
    Copy the full SHA
    3935a2b View commit details
    Browse the repository at this point in the history

Commits on Aug 23, 2023

  1. MAINT: Pandas deprecation (nilearn#3922)

    * MAINT: Pandas deprecation
    
    * STY: Flake
    larsoner authored Aug 23, 2023
    Configuration menu
    Copy the full SHA
    2b3dea0 View commit details
    Browse the repository at this point in the history
  2. [ENH] add vmin argument to plotting.plot_img_on_surf (nilearn#3873)

    * remove force_min_stat_map_value (not used anywhere)
    
    * add vmin to plot_img_on_surf (and _get_colorbar_and_data_ranges)
    
    * remove test for error on vmin input
    
    * keep old behaviour for plot_stat_map and plot_glass_brain
    
    * add check that vmin < vmax
    
    * add test cases with vmin
    
    * update tests
    
    * update docstrings
    
    * use different description of symmetric_cbar arg in docstring
    
    * add changelog entry
    
    * allow vmin == vmax
    
    * remove check that vmin <= vmax
    
    * add check for "engine" kwarg
    
    * clarify error message
    
    * try to increase test coverage
    
    * fix formatting
    
    * revert back to symmetric_cmap=True
    
    * remove duplicate test function (bad merge)
    
    * remove redundant vmin = -vmax
    
    * remove mention of symmetric_data_range in error message
    
    * use symmetric_cbar="auto" as default
    
    * handle symmetric_cbar == "auto" before filling in vmin/vmax
    
    * handle vmax < threshold case
    michellewang authored Aug 23, 2023
    Configuration menu
    Copy the full SHA
    fa6c32e View commit details
    Browse the repository at this point in the history
  3. [ENH]: Remove decorator from glm/regression (nilearn#3921)

    * Remove decorator
    
    * Add whatsnew
    
    * Fix flake8
    
    * Remove changes in first_level
    
    ---------
    
    Co-authored-by: achamma <[email protected]>
    achamma723 and achamma authored Aug 23, 2023
    Configuration menu
    Copy the full SHA
    0b49cc0 View commit details
    Browse the repository at this point in the history

Commits on Aug 24, 2023

  1. Revert breaking behavior in plot_glass_brain (nilearn#3924)

    * Revert behavior of vmin being ignored
    
    * Add smoke test for passing vmin and vmax
    
    * [example] plot_second_level_two_sample_test.py
    
    * Just being
    ymzayek authored Aug 24, 2023
    Configuration menu
    Copy the full SHA
    457c79e View commit details
    Browse the repository at this point in the history
  2. [MAINT] Refactor fixtures (nilearn#3905)

    * rename mni affine fixture
    
    * further fixture refactroring
    
    * refactor fixtures in nilearn/regions
    
    * refactor fixtures in decomposition
    
    * fix test pollution
    
    * try to get around the global var problem
    
    * add some doc in fixtures
    
    * rm constants
    
    * add rng fixture
    
    * add doc about fixture
    
    * Apply suggestions from code review
    
    Co-authored-by: Yasmin <[email protected]>
    
    * update contributing
    
    * fix tests
    
    ---------
    
    Co-authored-by: Yasmin <[email protected]>
    Remi-Gau and ymzayek authored Aug 24, 2023
    Configuration menu
    Copy the full SHA
    9d5409c View commit details
    Browse the repository at this point in the history

Commits on Aug 28, 2023

  1. [MAINT] refactor tests datasets (nilearn#3912)

    * rm extra fixture calls
    
    * rm duplicate test
    
    * refactor test get datadir
    
    * refactor test_func
    
    * refactor tests atlas
    
    * test neurovault
    
    * Apply suggestions from code review
    
    Co-authored-by: bthirion <[email protected]>
    
    * rm one extra reuest mocker
    
    * refactor tests
    
    * refactor and add comment
    
    * use fixtures
    
    * capture and test error message
    
    ---------
    
    Co-authored-by: bthirion <[email protected]>
    Remi-Gau and bthirion authored Aug 28, 2023
    Configuration menu
    Copy the full SHA
    25e4bdd View commit details
    Browse the repository at this point in the history
  2. [FIX/ENH] Improve generate_report method to work with fit_transform f…

    …or the maskers (nilearn#3897)
    
    * Pass imgs to fit in fit_transform
    
    * Change colormap
    
    * Improve docstrings
    
    * Remove unused import
    
    * Store 1 timepoint
    
    * Revert "Store 1 timepoint"
    
    This reverts commit 8d6d427.
    
    * Allow users to pass cmap
    
    * Add whatsnew
    ymzayek authored Aug 28, 2023
    Configuration menu
    Copy the full SHA
    3297258 View commit details
    Browse the repository at this point in the history

Commits on Aug 29, 2023

  1. [MAINT] Refactor/test utils (nilearn#3910)

    * refactor tests
    
    * refactor
    
    * refactor
    
    * fix
    
    * use fixtures
    
    * update code doc
    
    * refactor
    
    * use testing.write_tmp_imgs
    
    * Revert "use testing.write_tmp_imgs"
    
    This reverts commit 244f0f3.
    Remi-Gau authored Aug 29, 2023
    Configuration menu
    Copy the full SHA
    56f33f3 View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    23da827 View commit details
    Browse the repository at this point in the history
  3. [MAINT] replace tmpdir with tmp_path in tests (nilearn#3929)

    * replace tmpdir with tmp_path
    
    * rm extra import
    Remi-Gau authored Aug 29, 2023
    Configuration menu
    Copy the full SHA
    4e2a954 View commit details
    Browse the repository at this point in the history
  4. [MAINT] refactor tests regions extractions (nilearn#3931)

    * refactort tests deprecation warning
    
    * add restriction function length
    
    * test functions lenght in CI
    
    * config
    Remi-Gau authored Aug 29, 2023
    Configuration menu
    Copy the full SHA
    9ae8199 View commit details
    Browse the repository at this point in the history
  5. [MAINT] Expose standardize parameter in function signatures to allo…

    …w handling of deprecation (nilearn#3927)
    
    * Add standardize to address deprecation
    
    * Update examples
    
    * [full doc] build examples
    
    * Handle RegionExtractor case
    
    * [example] plot_extract_regions_dictlearning_maps.py
    
    * Handle last case
    
    * Add doctstring
    
    * [full doc] build examples
    
    * Add test for plot_carpet
    
    * Add test for connectivity measure
    
    * Add whatsnew
    ymzayek authored Aug 29, 2023
    Configuration menu
    Copy the full SHA
    0b4d7db View commit details
    Browse the repository at this point in the history
  6. [MAINT] refactor tests glm (nilearn#3915)

    * refactor test paradigm
    
    * refactor glm test utils
    
    * fixturize
    
    * add fxitures
    
    * use fixtures
    
    * use more fixtures
    
    * fix
    Remi-Gau authored Aug 29, 2023
    Configuration menu
    Copy the full SHA
    c859e91 View commit details
    Browse the repository at this point in the history

Commits on Aug 31, 2023

  1. [MAINT] refactor design matrix tests (nilearn#3939)

    * refactor design matrix related tests
    
    * rm extra n_frames
    
    * parametrize tests and add error match
    
    * fix
    Remi-Gau authored Aug 31, 2023
    Configuration menu
    Copy the full SHA
    f0852e1 View commit details
    Browse the repository at this point in the history
  2. [DOC] Plot only a few examples of probabilistic atlases (nilearn#3934)

    * Plot only one atlas
    
    * Plot 3 atlases according to display type
    
    * Improve rendering
    
    * Add missed atlas
    
    * Add whatsnew
    ymzayek authored Aug 31, 2023
    Configuration menu
    Copy the full SHA
    25e091a View commit details
    Browse the repository at this point in the history

Commits on Sep 2, 2023

  1. Configuration menu
    Copy the full SHA
    a00306f View commit details
    Browse the repository at this point in the history
  2. [FIX] allow using symmetric maps with plotly (nilearn#3942)

    * fix nilearn#3941
    
    * fix kwargs
    
    * implement test for matplotlib
    
    * update changelog
    
    * flake 8
    
    * fix failed ref
    
    * simplify
    
    * simplify
    
    * flake8
    
    * fix other argument
    
    * rename test
    
    * update changelog
    
    * flake8
    Remi-Gau authored Sep 2, 2023
    Configuration menu
    Copy the full SHA
    6578329 View commit details
    Browse the repository at this point in the history

Commits on Sep 5, 2023

  1. Configuration menu
    Copy the full SHA
    fa7f66e View commit details
    Browse the repository at this point in the history
  2. [FIX] Allow both vmin and threshold argument values to be used in plo…

    …tting functions using `colorscale` (nilearn#3945)
    
    * Allow both vmin and threshold to be passed
    
    * Add whatsnew
    
    * Add test
    
    * Add reference
    ymzayek authored Sep 5, 2023
    Configuration menu
    Copy the full SHA
    1759fa2 View commit details
    Browse the repository at this point in the history

Commits on Sep 6, 2023

  1. [ENH] Handle GLM designs with null or nan durations / onsets (nilearn…

    …#3943)
    
    * manual "rebase"
    
    * make functions public
    
    * throw errors for nan values
    
    * refactor
    
    * plot null duration events
    
    * fix link in doc
    
    * update example
    
    * ignore results
    
    * revert useless change
    
    * rm useless code
    
    * update changelog
    
    * rm :func: from changelog
    Remi-Gau authored Sep 6, 2023
    Configuration menu
    Copy the full SHA
    d4690b9 View commit details
    Browse the repository at this point in the history

Commits on Sep 7, 2023

  1. [DOC] improve section on private functions (nilearn#3952)

    * improve section on private functions
    
    * fix
    Remi-Gau authored Sep 7, 2023
    Configuration menu
    Copy the full SHA
    36648d4 View commit details
    Browse the repository at this point in the history

Commits on Sep 8, 2023

  1. Configuration menu
    Copy the full SHA
    45065b5 View commit details
    Browse the repository at this point in the history
  2. [MAINT] add more badges to changelog (nilearn#3955)

    * add :bdg-secondary:`Maint` badges
    
    * mooorrreee baaaadges
    Remi-Gau authored Sep 8, 2023
    Configuration menu
    Copy the full SHA
    339d179 View commit details
    Browse the repository at this point in the history

Commits on Sep 11, 2023

  1. pre-commit hooks auto-update (nilearn#3957)

    Co-authored-by: Remi-Gau <[email protected]>
    github-actions[bot] and Remi-Gau authored Sep 11, 2023
    Configuration menu
    Copy the full SHA
    65e0984 View commit details
    Browse the repository at this point in the history
  2. Bump actions/checkout from 3 to 4 (nilearn#3958)

    Bumps [actions/checkout](https://github.com/actions/checkout) from 3 to 4.
    - [Release notes](https://github.com/actions/checkout/releases)
    - [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md)
    - [Commits](actions/checkout@v3...v4)
    
    ---
    updated-dependencies:
    - dependency-name: actions/checkout
      dependency-type: direct:production
      update-type: version-update:semver-major
    ...
    
    Signed-off-by: dependabot[bot] <[email protected]>
    Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
    dependabot[bot] authored Sep 11, 2023
    Configuration menu
    Copy the full SHA
    1f899a4 View commit details
    Browse the repository at this point in the history
  3. Update label (nilearn#3959)

    ymzayek authored Sep 11, 2023
    Configuration menu
    Copy the full SHA
    90b666b View commit details
    Browse the repository at this point in the history
  4. Configuration menu
    Copy the full SHA
    021a150 View commit details
    Browse the repository at this point in the history

Commits on Sep 12, 2023

  1. [DOC] Use code cell syntax for splitting blocks in 00_tutorial exampl…

    …es (nilearn#3961)
    
    * Change block splitters format
    
    * Fix pattern not found
    ymzayek authored Sep 12, 2023
    Configuration menu
    Copy the full SHA
    d2779b9 View commit details
    Browse the repository at this point in the history
  2. [MAINT] Add affiliations (nilearn#3956)

    * update citation.cff
    
    * get affiliations from github
    
    * manual claeaning
    
    * update citation.cff
    
    * rm tsv
    
    * add affiliations to AUTHORS.rst
    
    * rm utility scripts
    
    * update affiliations after manual lookup
    
    * Apply suggestions from code review
    
    Co-authored-by: bthirion <[email protected]>
    
    * Apply suggestions from code review
    
    Co-authored-by: bthirion <[email protected]>
    
    * uniformize changes into citation.cff
    
    * update affiliations
    
    * update some affiliations that only had countries
    
    * update some orcid
    
    * update more orcid and affiliations
    
    ---------
    
    Co-authored-by: bthirion <[email protected]>
    Remi-Gau and bthirion authored Sep 12, 2023
    Configuration menu
    Copy the full SHA
    18fae8e View commit details
    Browse the repository at this point in the history
  3. Configuration menu
    Copy the full SHA
    38fb768 View commit details
    Browse the repository at this point in the history
  4. [DOC] add links and edit buttons to doc (nilearn#3964)

    * add links and edit buttons to doc
    
    * update year in doc
    
    * add discord and mastodon
    
    * add badges
    
    * update
    Remi-Gau authored Sep 12, 2023
    Configuration menu
    Copy the full SHA
    93c49f1 View commit details
    Browse the repository at this point in the history
  5. Configuration menu
    Copy the full SHA
    19cc33d View commit details
    Browse the repository at this point in the history