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TODO.txt
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TODO.txt
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Remember to list any API changes below in `doc/source/api_changes.txt`.
Version 0.17
------------
* Update RELEASE.txt regarding Azure Pipelines after making changes to
scikit-image-wheels repo.
* Finalize ``skimage.future.graph`` API.
* Finalize ``skimage.future.manual_segmentation`` API.
* In ``skimage.filters.median``, remove the parameters ``mask``, ``shift_x``,
and ``shift_y``.
* Remove deprecated arguments ``beta1`` and ``beta2`` from function ``skimage.filters.frangi``
* Remove deprecated arguments ``beta1`` and ``beta2`` from function ``skimage.filters.hessian``
* Remove unused arguments ``dtype`` in ``imread`` functions. See #3918.
* Remove ``rough_wall`` from ``skimage.data.__init__``.
* Remove parameter ``img`` from skimage.morphology.skeletonize_3d.
Version 0.18
------------
* Set ``preserve_range`` to ``False`` in ``radon`` and remove the
deprecation warning.
* Remove deprecated function ``guess_spatial_dimensions`` in ``skimage.color.__init__``.
* Remove deprecated function ``load`` in ``skimage.data.__init__.py``.
* The following functions are deprecated and should be removed in 0.18:
`skimage.measure.compare_mse`,
`skimage.measure.compare_nrmse`,
`skimage.measure.compare_pnsr`
`skimage.measure.compare_ssim`
* `skimage/measure/tests/test_simple_metrics.py` should also be removed
* make coordinates='rc' the default in ``segmentation.active_contour``
* remove deprecated ``bc`` argument in ``segmentation.active_contour``
* In ``skimage/measure/_ccomp.label_cython`` remove the deprecated parameter
``neighbors`` and update the tests. Set the default value of ``connectivity``
to 2.
* In ``skimage/morphology/convex_hull.py`` remove the deprecated parameter
``neighbors`` and update the tests. Set the default value of ``connectivity``
to 2.
* In ``skimage.features.corner_peaks``, remove the warning.
* In the following docstrings, remove the explicit setting of ``threshold_rel=0``
* ``skimage/feature/brief.py::BRIEF``
* `` skimage/feature/corner.py::corner_harris``
* `` skimage/feature/corner.py::corner_shi_tomasi``
* `` skimage/feature/corner.py::corner_foerstner``
* `` skimage/feature/corner.py::corner_fast``
* `` skimage/feature/corner.py::corner_subpix``
* `` skimage/feature/corner.py::corner_peaks``
* `` skimage/feature/corner.py::corner_orientations``
* In ``skimage/feature/orb.py::_detect_octage`` remove explicitely setting
``threshold_rel=0``.
* In ``skimage/transform`` remove histogram_matching.py.
* In ``skimage/restoration/_denoise.py`` remove warning regarding
``rescale_sigma``.
* In ``skimage/restoration/_cycle_spin.py::cycle_spin`` unskip the doctest
now that the denoise warning is gone.
Version 0.19
------------
* Set ``start_label`` to 1 in ``slic`` and remove the DeprecationWarning.
* In ``skimage/draw/draw.py`` remove ``circle'' and related tests.
* In ``skimage/segmentation/morphsnakes.py`` remove ``circle_level_set'' and related tests.
* Also make sure to look in the function ``_init_level_set``
* In ``skimage/morphology/_flood_fill.py`` replace the deprecated parameter
in flood_fill() ``inplace`` with ``in_place`` and update the tests.
* In ``skimage/filters/rank/generic.py'' remove tophat and bottomhat (See #3614)
* Remove the definition of `skimage.util.pad` and
skimage/util/tests/test_arraypad.py.
* Remove the warnings in ``skimage/filters/ridges.py`` from sato and hessian
functions.
* In ``skimage/color/colorconv.py``, remove `rgb2grey` and `grey2rgb`.
* In ``skimage/color/colorconv.py``, remove the deprecation warnings
from `rgb2gray`.
* In ``skimage/transform/radon_transform.py``, remove ``deprate_kwarg``
decoration from ``iradon``.
* In ``skimage/measure/profile.py``, set default mode to 'reflect' in
`profile_line` and remove the deprecation warning.
* In ``skimage/_shared/utils.py``, raise a ValueError instead of the
warning when order > 0 and input array is bool in _set_order.
* In ``skimage/transform/_warps.py``, raise a ValueError instead of the
warning when anti_aliasing is True and input array is bool in resize.
* In ``skimage/feature/__init__.py``, remove `register_translation`.
* In ``skimage.measure._marching_cube_lewiner.py``, remove
``marching_cube_lewiner``.
* In ``skimage.measure._marching_cube_classic.py``, remove
``marching_cube_classic``.
* In ``skimage/color/colorconv.py``, remove the `alpha`and `is_rgb`
arguments and the associated deprecation warnings from `gray2rgb`.
* In ``skimage/color/colorlabel.py``, remove the `change_default_value`
decorator from `label2rgb` and set `bg_label` default value to 0.
* In ``skimage/feature/__init__.py``, remove `masked_register_translation`.
Other
-----
* Remove custom fused type in ``skimage/morphology/_max_tree.pyx`` once
#3486 fused types is merged.
* Remove the conditional import and function call when ``numpy`` is set
to >= 1.16.0 in ``skimage/util/arraycrop.py``.
* Check whether imread wheels are available, then re-enable testing imread
on macOS. See https://github.com/scikit-image/scikit-image/pull/3898
* When ``numpy`` is set to > 1.16, one may simplify the implementation of
of `feature.blob_log` using the vectorized version of ``np.logspace``.
* Remove conditional import of ``scipy.fft`` in ``skimage._shared.fft`` once
the minimum supported version of ``scipy`` reaches 1.4.
* When ``numpy`` is set to >= 1.16, simplify ``draw.line_nd`` by using the
vectorized version of ``np.linspace``.
* Monitor when multibuild devel gets merged into master for python 3.8
compatibility https://github.com/matthew-brett/multibuild/issues/284
and update osx_install to point to the correct branch
* Remove pillow version related warning for MPO file format in
`io._plugins.pil_plugin.imread` when upgrading pillow min version to
6.0.0
* When ``numpy`` is set to >= 1.16, remove the warning assertion in
``skimage/exposure/tests/test_exposure.py::test_rescale_nan_warning``
regarding ``invalid value encountered in reduce``.
* When ``numpy`` is set to >= 1.17, revisit the warning assertion in
``skimage/exposure/tests/test_exposure.py::test_rescale_nan_warning``
regarding ``Passing `np.nan` to mean no clipping in np.clip``.
* Remove direct allocation of ``output`` from ``skimage/filters/_gaussian.py``,
when ``scipy`` upgrades to 1.1.
* Specify atol value in `cg` calls and remove condition on scipy's version in
``skimage/segmentation/random_walker_segmentation.py`` when ``scipy`` upgrades
to 1.1.
* Remove '--verify-repo=none' in tlmgr calls in ``tools/travis/osx_install.sh``,
when texlive 2020 is available.
* Once NumPy is set to >= 1.17, consider removing
``skimage.morphology._util._fast_pad``.
* Once numpydoc > 0.9.x (ie https://github.com/numpy/numpydoc/pull/256) is
released, remove `strip_signature_backslash = True` in
``doc/source/conf.py``.