File python-nibabel.changes of Package python-nibabel

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File python-nibabel.changes of Package python-nibabel (Revision 44fa041a9ddae7f6f232dd4e3be22eab)

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Mon Mar 25 20:12:25 UTC 2024 - Dirk Müller <dmueller@suse.com>

- update to 5.2.1:
  * Support "flat" ASCII-encoded GIFTI DataArrays (pr/1298) (PM,
    reviewed by CM)
  * Tolerate missing ``git`` when reporting version info
    (pr/1286)
  * Handle Siemens XA30 derived DWI DICOMs (pr/1296)
  * Add tool for generating GitHub-friendly release notes
  * Accommodate pytest 8 changes (pr/1297) (CM)

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Thu Feb 15 16:13:37 UTC 2024 - Ben Greiner <code@bnavigator.de>

- Update to 5.2.0
  ## New features
  * Add generic Pointset and regularly spaced Grid data structures
    in preparation for coordinate transformation and resampling
    (#1251) (CM, reviewed by Oscar Esteban)
  ## Enhancements
  * Add copy method to ArrayProxy (#1255) (CM, reviewed by Paul
    McCarthy)
  * Permit to_xml to pass keyword arguments to tostring (#1258)
    (CM)
  * Allow user expansion (e.g., ~/...) in strings passed to
    functions that accept paths (#1260) (Reinder Vos de Wael,
    reviewed by CM)
  * Expand CIFTI-2 brain structures to permit synonyms (#1256) (CM,
    reviewed by Mathias Goncalves)
  * Annotate SpatialImage as accepting affine=None argument (#1253)
    (Blake Dewey, reviewed by CM)
  * Warn on invalid MINC2 spacing declarations, treat as missing
    (#1237) (Peter Suter, reviewed by CM)
  * Refactor find_private_section for improved readability and
    maintainability (#1228) (MB, reviewed by CM)
  ## API changes and deprecations
  * The nibabel.pydicom_compat module is deprecated and will be
    removed in NiBabel 7.0. (#1280)
  * The int_to_float and as_int functions are no longer needed to
    work around NumPy deficiencies and have been deprecated (#1272)
    (CM, reviewed by EL)
- Release 5.1
  ## Enhancements
  * Make imagestats available with import nibabel (pr/1208) (Fabian
    Perez, reviewed by CM)
  * Use symmetric threshold for identifying unit quaternions on
    qform calculations (pr/1182) (CM, reviewed by MB)
  * Type annotations for nibabel.loadsave (pr/1213) and
    nibabel.spatialimages.SpatialImage APIs (pr/1179),
    nibabel.deprecated, nibabel.deprecator, nibabel.onetime and
    nibabel.optpkg modules (pr/1188), nibabel.volumeutils
    (pr/1189), nibabel.filename_parser and nibabel.openers
    (pr/1197) (CM, reviewed by Zvi Baratz)
- Release 5.0
  ## New features
  * SerializableImage now has to_stream() and from_stream() methods
    to read/write streams implementing the io.IOBase interface. A
    from_url() method enables loading images from URLs. (pr/1129)
    (CM, reviewed by MB)
  * TrkFile supports TRKv3, an undocumented but generally
    compatible variant of TRKv2. (pr/1125) (CM)
  ## Enhancements
  * Support multiline header fields in TCKFile (pr/1175) (CM,
    reviewed by Matt Cieslak)
  * Make layout order an initialization parameter of ArrayProxy
    (pr/1131) (CM, reviewed by MB)
  * Initial support for type annotations. (pr/1115, pr/1178) (CM,
    reviewed by Zvi Baratz)
  ## API changes and deprecations
  * Passing an int64 array to Nifti1Image without a header or dtype
    argument will raise a ValueError. (pr/1173) (CM)
  * tmpdirs.TemporaryDirectory is deprecated in favor of
    tempfile.TemporaryDirectory. (pr/1172) (CM, reviewed by Zvi
    Baratz)
  * The nisext package is deprecated and will be removed in NiBabel
    6.0. (pr/1170) (CM, reviewed by MB)
  * Drop support for Python 3.7, Numpy < 1.19 (pr/1177) (CM)
  * The following deprecated functions and methods will now raise
    ExpiredDeprecationErrors
    - nibabel.loadsave.read_img_data
    - nibabel.dataobj_images.DataobjImage.get_data
    - nibabel.loadsave.guessed_image_type
    - nibabel.onetime.setattr_on_read
    - nibabel.orientations.flip_axis
  * Modules, classes and functions that expired at 4.0 were fully
    removed. ExpiredDeprecationError will now be
    AttributeError.

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Thu Oct  6 14:07:18 UTC 2022 - Markéta Machová <mmachova@suse.com>

- Update to 4.0.2
  * many changes, see Changelog
  * nib-convert CLI tool to make image type and data dtype conversion
    accessible via the command line.
  * Allow dtypes to be passed to Analyze-like images at __init__()
    and to_filename()
  * Allow compressed GIFTI images
  * Add zstd compression support
  * Test on Python 3.10
  * Passing (u)int64 arrays to Nifti1Image and subclasses will warn
    unless a header or dtype option is passed; in the future this will
    become an error. Additionally, passing int or 'int' to set_data_dtype()
    now raises an error, requiring an explicit numpy dtype to make 64-bit
    integer images.
  * Drop support for Python 3.6, Numpy < 1.17
  * Fully removed the APIs, which have raised errors on use since 3.0
- Drop upstreamed 983.patch and purge-nose.patch

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Wed Mar 31 09:09:56 UTC 2021 - Guillaume GARDET <guillaume.gardet@opensuse.org>

- Add upstream patch to fix test on Backports:SLE-15-SP3:
  * 983.patch

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Fri Feb 12 14:37:36 UTC 2021 - Dirk Müller <dmueller@suse.com>

- skip python 36

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Fri Jul 10 09:06:52 UTC 2020 - Marketa Calabkova <mcalabkova@suse.com>

- Update to 3.1.1
  * Conformation function (``processing.conform``) and CLI tool
    (``nib-conform``) to apply shape, orientation and zooms (pr/853) (Jakub
    Kaczmarzyk, reviewed by CM, YOH)
  * Affine rescaling function (``affines.rescale_affine``) to update
    dimensions and voxel sizes (pr/853) (CM, reviewed by Jakub Kaczmarzyk)
  * ``kw_only_meth``/``kw_only_func`` decorators are deprecated (pr/848)
    (RM, reviewed by CM)
- Add patch purge-nose.patch

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Thu May 21 10:56:36 UTC 2020 - Petr Gajdos <pgajdos@suse.com>

- %python3_only -> %python_alternative

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Fri Mar  6 08:07:25 UTC 2020 - Tomáš Chvátal <tchvatal@suse.com>

- Update to 3.0.1:
  * Test failed by using array method on tuple. (pr/860) (Ben Darwin, reviewed by CM)
  * Validate ExpiredDeprecationErrors, promoted by 3.0 release from DeprecationWarnings. (pr/857) (CM)
  * Improve testing of data scaling in ArrayProxy API (pr/847) (CM, reviewed by Alejandro de la Vega)
  * Document SpatialImage.slicer interface (pr/846) (CM)
  * get_fdata(dtype=np.float32) will attempt to avoid casting data to np.float64 when scaling parameters would otherwise promote the data type unnecessarily. (pr/833) (CM, reviewed by Ross Markello)
  * ArraySequence now supports a large set of Python operators to combine or update in-place. (pr/811) (MC, reviewed by Serge Koudoro, Philippe Poulin, CM, MB)
  * Warn, rather than fail, on DICOMs with unreadable Siemens CSA tags (pr/818) (Henry Braun, reviewed by CM)
  * Improve clarity of coordinate system tutorial (pr/823) (Egor Panfilov, reviewed by MB)

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Tue Nov 19 20:41:07 UTC 2019 - Todd R <toddrme2178@gmail.com>

- Update to version 2.5.1
  + Enhancements
    * Ignore endianness in ``nib-diff`` if values match
  + Bug fixes
    * Correctly handle Philips DICOMs w/ derived volume
    * Raise CSA tag limit to 1000, parametrize for future relaxing
    * Coerce data types to match NIfTI intent codes when writing GIFTI data
      arrays
  + Maintenance
    * Require h5py 2.10 for Windows + Python < 3.6 to resolve unexpected dtypes
      in Minc2 data
  + API changes and deprecations
    * Deprecate ``nicom.dicomwrappers.Wrapper.get_affine()`` in favor of ``affine``
      property; final removal in nibabel 4.0
- Update to version 2.5.0
  + Enhancements
    * Add SerializableImage class with to/from_bytes methods
    * Check CIFTI-2 data shape matches shape described by header
  + Bug fixes
    * Handle stricter numpy casting rules in tests
    * TRK header fields flipped in files written on big-endian systems
    * Load multiframe ECAT images with Python 3
  + Maintenance
    * Fix CodeCov paths on Appveyor for more accurate coverage
    * Move to setuptools and reduce use ``nisext`` functions
    * Better handle test setup/teardown
  + API changes and deprecations
    * Effect threatened warnings and set some deprecation timelines
    * Trackvis methods now default to v2 formats
    * ``nibabel.trackvis`` scheduled for removal in nibabel 4.0
    * ``nibabel.minc`` and ``nibabel.MincImage`` will be removed in nibabel 3.0
- Drop upstream-included fix_numpy_1_17.patch

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Mon Jul 29 18:56:10 UTC 2019 - Todd R <toddrme2178@gmail.com>

- Add fix_numpy_1_17.patch to fix building with numpy 1.17.0
  From: gh#/nipy/nibabel#768

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Fri Jul 26 14:21:33 UTC 2019 - Todd R <toddrme2178@gmail.com>

- Initial version

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