Bump nilearn from 0.10.1 to 0.10.2

[dependabot]

Bumps nilearn from 0.10.1 to 0.10.2.

Release notes

Sourced from nilearn's releases.

0.10.2

Released September 2023

HIGHLIGHTS

• Volume plotting functions like plotting.plot_img now have an optional radiological parameter, defaulting to False. If True, this will invert the x-axis and L and R annotations to confirm to radiological conventional view..
• Update Decoder objects to use the more efficient LogisticRegressionCV.
• Add LassoCV as a new estimator option for Decoder objects
• Add vmin and symmetric_cbar arguments to nilearn.plotting.plot_img_on_surf.
• Improve contrasts allowing fixed effects on F contrasts
• New experimental surface API to facilitate working with surface data in downstream surface-based analyses. We provide this API as a nilearn.experimental.surface module as it is still incomplete and subject to change without a deprecation cycle..

NEW

• Volume plotting functions like plotting.plot_img now have an optional radiological parameter, defaulting to False. If True, this will invert the x-axis and L and R annotations to confirm to radiological conventional view..
• New experimental surface API to facilitate working with surface data in downstream surface-based analyses. We provide this API as a nilearn.experimental.surface module as it is still incomplete and subject to change without a deprecation cycle..

Fixes

• Fix bug in method transform_imgs of maskers.MultiNiftiMapsMasker and maskers.MultiNiftiLabelsMasker that would raise an error if a list of sample_mask was specified to fit_transform.
• Fix bug in nilearn.plotting.surf_plotting._plot_surf_matplotlib that would make vertices transparent when saving in PDF or SVG format.
• Fix bug that would prevent using symmetric_cmap=True or the avg_method argument with plotting.plot_surf_roi.
• Fixes a bug that would lead to an error when loading a fsaverage surface while relying on numpy >= 1.24.x.
• Fix bug that would prevent loading the confounds of a gifti file in actual fmriprep datasets.
• Fix bug that prevented using dataframes as input for second level GLM when computing contrasts.
• Fix bug in glm.first_level.first_level_from_bids that returned no confound files if the corresponding bold files contained derivatives BIDS entities.
• Fix bug in glm.first_level.first_level_from_bids that would throw a warning about slice_time_ref not being provided even when it was.
• Fix bug where the cv_params_ attribute of fitter Decoder objects sometimes had missing entries if grid_param is a sequence of dicts with different keys.
• Make the nilearn.interfaces.fmriprep.load_confounds confounds file selection more generic.
• Change default figure sizes to prevent titles from overlapping figure content
• Relax the nilearn.interfaces.fmriprep.load_confounds confounds selection on cosine as not all confound files contained the variables.
• Fix pathlib.Path not being counted as Niimg-like object in image.new_img_like.
• Fix fit_transform behavior to match when fit method is passed image data
• Allow using both vmin and threshold with "plotly" engine to be consistent with "matplotlib" behavior
• Set edgecolors to be the same as facecolors in plotting.plot_surf_contours so that ROI contours are rendered clearly
• Refactor deprecation of behavior of datasets.fetch_atlas_craddock_2012, datasets.fetch_atlas_smith_2009 and datasets.fetch_atlas_basc_multiscale_2015 fetchers including using API consistent maps key

Enhancements

• Add cross-reference links to type definitions in public surface functions.
• Update Decoder objects to use the more efficient LogisticRegressionCV.
• Throw warning in glm.first_level.first_level_from_bids when using event.tsv files with no trial type column.
• Make return key names in the description file of destrieux surface consistent with datasets.fetch_atlas_surf_destrieux.
• Add LassoCV as a new estimator option for Decoder objects
• Add vmin and symmetric_cbar arguments to nilearn.plotting.plot_img_on_surf.
• Improve generate_report method of maskers by allowing users to pass a cmap argument for plotting image
• Improve contrasts allowing fixed effects on F contrasts

Changes

... (truncated)

Commits

• 960589c Release 0.10.2 (#4014)
• 9133bd9 [DOC] Set up experimental module and surface API for docs (#4017)
• 89f4642 SurfaceImage and maskers (#3856)
• 04892a0 update pytest config (#4009)
• 8090e3f [REL] add tags to changelog (#4012)
• 5d7f5c6 apply some hooks (#4005)
• 9c52009 [MAINT] add names to all steps in all GHA workflows (#4006)
• 992e523 [REL] remove dev in sphinx directives related to version (#4013)
• 0300d74 [FIX] improve support for F statistics in compute_fixed_effects (#3203)
• b214dce [DOC] use double backticks in rst files (#4010)
• Additional commits viewable in compare view

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[tsalo]

This will need to wait until nilearn/nilearn#3285 is merged and a new release is made.

[dependabot]

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