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python311-nibabel-5.3.2-1.2 RPM for noarch

From OpenSuSE Tumbleweed for noarch

Name: python311-nibabel Distribution: openSUSE Tumbleweed
Version: 5.3.2 Vendor: openSUSE
Release: 1.2 Build date: Tue Nov 26 06:22:53 2024
Group: Unspecified Build host: reproducible
Size: 13222727 Source RPM: python-nibabel-5.3.2-1.2.src.rpm
Packager: https://bugs.opensuse.org
Url: https://nipy.org/nibabel
Summary: Tool to access multiple neuroimaging data formats
 
This package provides read +/- write access to some common medical and
neuroimaging file formats, including: ANALYZE (plain, SPM99, SPM2 and
later), GIFTI, NIfTI1, NIfTI2, CIFTI-2, MINC1, MINC2, AFNI BRIK/HEAD,
MGH and ECAT as well as Philips PAR/REC. We can read and write
FreeSurfer geometry, annotation and morphometry files. There is some
very limited support for DICOM.

Provides

Requires

License

MIT

Changelog

* Tue Nov 26 2024 Steve Kowalik <steven.kowalik@suse.com>
  - Update to 5.3.2:
    * New features
      + Update NIfTI extension protocol to include .content : bytes, .text :
      str and .json : dict properties for accessing extension contents.
    * Enhancements
      + Ability to read data from many multiframe DICOM files that previously
      generated errors
      + nib-nifti-dx now supports NIfTI-2 files with a --nifti2 flag
      + Update nibabel.streamlines.tractogram to support ragged arrays.
      + Improve error message for for dicomwrapper errors in shape
      calculation
      + Support "flat" ASCII-encoded GIFTI DataArrays
    * Bug fixes
      + Fix location initialization/update in OrthoSlicer3D for permuted axes
      + Fix DICOM scaling, making frame filtering explicit
      + Fixed multiframe DICOM issue where data could be flipped along slice
      dimension relative to the affine
      + Fixed multiframe DICOM issue where image_position and the translation
      component in the affine could be incorrect
    * Maintenance
      + Numpy 2.0 compatibility and addressing deprecations in numpy API
      + Python 3.13 compatibility
      + Testing on Python 3.13 with free-threading
      + Proactively address deprecations in coming Python versions
      + Replace nose-era setup() and teardown() functions with pytest
      equivalents
    * API changes and deprecations
      + Raise HeaderDataError from set_qform if the affine fails to
      decompose. This would previously result in numpy.linalgLinAlgError.
      + The nibabel.onetime.auto_attr module can be replaced by
      functoolscached_property in all supported versions of Python. This
      alias may be removed in future versions.
      + Removed the deprecated nisext (setuptools extensions) package.
  - Dropped patches, included upstream:
    * support-pytest-8.patch
    * support-numpy-2.patch
* Thu Jul 25 2024 Steve Kowalik <steven.kowalik@suse.com>
  - Remove numpy upper bound.
  - Add patch support-numpy-2.patch:
    * Use np.asarray() to support NumPy 2 as well.
* Mon Jul 22 2024 Steve Kowalik <steven.kowalik@suse.com>
  - Switch to autosetup macro.
  - Restrict numpy to < 2 because it isn't currently supported.
  - Add patch support-pytest-8.patch:
    * Use pytest setup/teardown methods.
* Mon Mar 25 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)
* Thu Feb 15 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.
* Thu Oct 06 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
* Wed Mar 31 2021 Guillaume GARDET <guillaume.gardet@opensuse.org>
  - Add upstream patch to fix test on Backports:SLE-15-SP3:
    * 983.patch
* Fri Feb 12 2021 Dirk Müller <dmueller@suse.com>
  - skip python 36
* Fri Jul 10 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
* Thu May 21 2020 Petr Gajdos <pgajdos@suse.com>
  - %python3_only -> %python_alternative

Files

/etc/alternatives/nib-conform
/etc/alternatives/nib-convert
/etc/alternatives/nib-dicomfs
/etc/alternatives/nib-diff
/etc/alternatives/nib-ls
/etc/alternatives/nib-nifti-dx
/etc/alternatives/nib-roi
/etc/alternatives/nib-stats
/etc/alternatives/nib-tck2trk
/etc/alternatives/nib-trk2tck
/etc/alternatives/parrec2nii
/usr/bin/nib-conform
/usr/bin/nib-conform-3.11
/usr/bin/nib-convert
/usr/bin/nib-convert-3.11
/usr/bin/nib-dicomfs
/usr/bin/nib-dicomfs-3.11
/usr/bin/nib-diff
/usr/bin/nib-diff-3.11
/usr/bin/nib-ls
/usr/bin/nib-ls-3.11
/usr/bin/nib-nifti-dx
/usr/bin/nib-nifti-dx-3.11
/usr/bin/nib-roi
/usr/bin/nib-roi-3.11
/usr/bin/nib-stats
/usr/bin/nib-stats-3.11
/usr/bin/nib-tck2trk
/usr/bin/nib-tck2trk-3.11
/usr/bin/nib-trk2tck
/usr/bin/nib-trk2tck-3.11
/usr/bin/parrec2nii
/usr/bin/parrec2nii-3.11
/usr/lib/python3.11/site-packages/nibabel
/usr/lib/python3.11/site-packages/nibabel-5.3.2.dist-info
/usr/lib/python3.11/site-packages/nibabel-5.3.2.dist-info/INSTALLER
/usr/lib/python3.11/site-packages/nibabel-5.3.2.dist-info/METADATA
/usr/lib/python3.11/site-packages/nibabel-5.3.2.dist-info/RECORD
/usr/lib/python3.11/site-packages/nibabel-5.3.2.dist-info/REQUESTED
/usr/lib/python3.11/site-packages/nibabel-5.3.2.dist-info/WHEEL
/usr/lib/python3.11/site-packages/nibabel-5.3.2.dist-info/entry_points.txt
/usr/lib/python3.11/site-packages/nibabel-5.3.2.dist-info/licenses
/usr/lib/python3.11/site-packages/nibabel-5.3.2.dist-info/licenses/COPYING
/usr/lib/python3.11/site-packages/nibabel/__init__.py
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Fabrice Bellet, Sun Jan 12 00:30:25 2025