scikit-image 0.25.0rc1

We're happy to announce the release of scikit-image 0.25.0rc1!

New Features

• Add the new Grey-Level Co-occurrence Matrix (GLCM) properties "mean", "variance", "standard deviation" and "entropy" to skimage.feature.texture.graycoprops (#7375).

API Changes

• Complete the deprecation of and remove skimage.feature.plot_matches. Use skimage.feature.plot_matched_features going forward (#7487).
• Deprecate skimage.io.imshow, skimage.io.imshow_collection and skimage.io.show. Please use matplotlib, napari, etc. to visualize images (#7508).

Enhancements

• Improve numerical stability of skimage.morphology.local_minima for extremely small floats (#7534).

Bug Fixes

• Ensure that skimage.morphology.remove_objects_by_distance doesn't fail if the given integer dtype cannot be safely cast to the architecture specific size of intp, e.g. on i386 architectures (#7453).
• Fix degeneracy in skimage.draw.ellipsoid_stats when all semi-axes have the same length (#7473).
• Prevent skimage.morphology.thin from accidentally modifying the input image in case it is of dtype uint8 (#7469).
• Fix numerical precision error in skimage.measure.ransac. In some cases, ransac was stopping at the first iteration (#7065).
• Fix numerical precision error in skimage.measure.ransac; very small probabilities lead to -0 number of max trials (#7496).

Documentation

• In skimage.morphology.skeletonize, clarify the expected image dtypes and how objects of different intensities are handled (#7456).
• Fix example section in docstring of skimage.feature.graycomatrix (#7297).
• Use conda-forge consistently in instructions for setting up the development environment (#7483).
• Use new CITATION.cff instead of CITATION.bib (#7505).
• Use correct spin test --coverage in contribution guide (#7515).
• Tweak advice to new developers; remove AI warning (#7522).
• Rework installation instructions (#7434).
• Improve the description of the image parameter in skimage.restoration.richardson_lucy (#7477).
• Account for empty arrays when counting segments per contour level in gallery example "Segment human cells (in mitosis)" (#7551).

Infrastructure

• Fix CI tests with minimal dependencies and make dependency resolution more robust (#7462).
• Add CI to test scikit-image against free-threaded Python 3.13 (#7463).
• Address autosummary.import_cycle warning (#7486).
• Temporarily exclude Dask 2024.8.0 to fix CI (#7493).
• Uncomment currentmodule directive again (#7492).
• Add CI to release nightly free-threaded wheels (#7481).
• Update deprecated configuration (#7501).
• Bump spin version to 0.11 (#7507).
• Ensure only a single type: label is present in PRs (#7512).
• Update pydata-sphinx-theme (#7511).
• Fix OpenBLAS s_cmp unresolved symbol error, update Emscripten CI testing (#7525).

Maintenance

• Verify all artifacts that have been attested by looping over them in CI (#7447).
• Update circleci-artifacts-redirector-action that moved to the Scientific Python org (#7446).
• Use NumPy 2.0 stable to build packages (#7451).
• FIX Use python3 in Meson version script shebang (#7482).
• Refactored tests for skeletonize (#7459).
• Remove unused and deprecated dependency pytest-runner (#7495).
• Exclude imageio 2.35.0 that forces numpy downgrade (#7502).
• Don't test thresholding funcs for Dask compatibility (#7509).
• Fix build dependency (#7510).
• Add sdist check to spin sdist (#7438).
• Reorder items in TODO list (#7519).
• Use Rotation.from_euler to compute 3D rotation matrix (#7503).
• Update spin (0.12) (#7532).
• Import lazy_loader as private symbol in top-level namespaces (#7540).
• Set -DNPY_NO_DEPRECATED_API=NPY_1_23_API_VERSION on build (#7538).
• Update up/download artifact version (#7545).
• Don't use deprecated io.show and io.imshow (#7556).
• Hide traceback inside assert_stacklevel (#7558).
• Update pre-commit versions (#7560).
• Drop Python 3.9 support (#7561).
• Update minimum dependencies (SPEC 0) (#7562).
• Remove unused PYX files in io/_plugins (#7557).
• Support Python 3.13 (#7565).
• During deprecation cycles, preserve the value of deprecated parameters that don't have a new parameter as a replacement (#7552).
• Fix missing minigalleries by using full names in directives (#7567).
• Build Python 3.13 wheels (#7571).
• Update TODO (#7573).
• Remove deprecated skeletonize_3d (#7572).
• Remove deprecated gaussian output parameter (#7574).

Contributors

21 authors added to this release (alphabetically):

• @FedericoWZhaw
• @jakirkham
• @michaelbratsch
• Adeyemi Biola (@decorouz)
• Agriya Khetarpal (@agriyakhetarpal)
• Brigitta Sipőcz (@bsipocz)
• Edgar Andrés Margffoy Tuay (@andfoy)
• Egor Panfilov (@soupault)
• Erik Welch (@eriknw)
• Gianluca (@geeanlooca)
• Hayato Ikoma (@hayatoikoma)
• Jarrod Millman (@jarrodmillman)
• João Seródio (@SerodioJ)
• Kushaan Gupta (@kushaangupta)
• Lars Grüter (@lagru)
• Loïc Estève (@lesteve)
• Marianne Corvellec (@mkcor)
• Mark Harfouche (@hmaarrfk)
• Matthew Feickert (@matthewfeickert)
• Piyush Amitabh (@pamitabh)
• Stefan van der Walt (@stefanv)

20 reviewers added to this release (alphabetically):

• @FedericoWZhaw
• @jakirkham
• @michaelbratsch
• Agriya Khetarpal (@agriyakhetarpal)
• Brigitta Sipőcz (@bsipocz)
• Edgar Andrés Margffoy Tuay (@andfoy)
• Egor Panfilov (@soupault)
• Gianluca (@geeanlooca)
• Hayato Ikoma (@hayatoikoma)
• Jarrod Millman (@jarrodmillman)
• João Seródio (@SerodioJ)
• Kushaan Gupta (@kushaangupta)
• Lars Grüter (@lagru)
• Marianne Corvellec (@mkcor)
• Mark Harfouche (@hmaarrfk)
• Matthew Feickert (@matthewfeickert)
• Nathan Goldbaum (@ngoldbaum)
• Piyush Amitabh (@pamitabh)
• Ralf Gommers (@rgommers)
• Stefan van der Walt (@stefanv)

These lists are automatically generated, and may not be complete or may contain duplicates.