File python-nibabel.changes of Package python-nibabel
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Thu Jul 25 02:05:50 UTC 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.
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Mon Jul 22 05:51:49 UTC 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.
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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
