forked from pool/python-nibabel
7fb68bda45
- Add patch support-numpy-2.patch: * Use np.asarray() to support NumPy 2 as well. OBS-URL: https://build.opensuse.org/package/show/devel:languages:python:numeric/python-nibabel?expand=0&rev=26
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214 lines
9.5 KiB
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-------------------------------------------------------------------
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Thu Jul 25 02:05:50 UTC 2024 - Steve Kowalik <steven.kowalik@suse.com>
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- Remove numpy upper bound.
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- Add patch support-numpy-2.patch:
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* Use np.asarray() to support NumPy 2 as well.
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-------------------------------------------------------------------
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Mon Jul 22 05:51:49 UTC 2024 - Steve Kowalik <steven.kowalik@suse.com>
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- Switch to autosetup macro.
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- Restrict numpy to < 2 because it isn't currently supported.
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- Add patch support-pytest-8.patch:
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* Use pytest setup/teardown methods.
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-------------------------------------------------------------------
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Mon Mar 25 20:12:25 UTC 2024 - Dirk Müller <dmueller@suse.com>
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- update to 5.2.1:
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* Support "flat" ASCII-encoded GIFTI DataArrays (pr/1298) (PM,
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reviewed by CM)
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* Tolerate missing ``git`` when reporting version info
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(pr/1286)
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* Handle Siemens XA30 derived DWI DICOMs (pr/1296)
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* Add tool for generating GitHub-friendly release notes
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* Accommodate pytest 8 changes (pr/1297) (CM)
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-------------------------------------------------------------------
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Thu Feb 15 16:13:37 UTC 2024 - Ben Greiner <code@bnavigator.de>
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- Update to 5.2.0
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## New features
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* Add generic Pointset and regularly spaced Grid data structures
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in preparation for coordinate transformation and resampling
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(#1251) (CM, reviewed by Oscar Esteban)
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## Enhancements
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* Add copy method to ArrayProxy (#1255) (CM, reviewed by Paul
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McCarthy)
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* Permit to_xml to pass keyword arguments to tostring (#1258)
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(CM)
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* Allow user expansion (e.g., ~/...) in strings passed to
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functions that accept paths (#1260) (Reinder Vos de Wael,
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reviewed by CM)
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* Expand CIFTI-2 brain structures to permit synonyms (#1256) (CM,
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reviewed by Mathias Goncalves)
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* Annotate SpatialImage as accepting affine=None argument (#1253)
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(Blake Dewey, reviewed by CM)
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* Warn on invalid MINC2 spacing declarations, treat as missing
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(#1237) (Peter Suter, reviewed by CM)
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* Refactor find_private_section for improved readability and
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maintainability (#1228) (MB, reviewed by CM)
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## API changes and deprecations
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* The nibabel.pydicom_compat module is deprecated and will be
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removed in NiBabel 7.0. (#1280)
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* The int_to_float and as_int functions are no longer needed to
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work around NumPy deficiencies and have been deprecated (#1272)
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(CM, reviewed by EL)
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- Release 5.1
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## Enhancements
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* Make imagestats available with import nibabel (pr/1208) (Fabian
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Perez, reviewed by CM)
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* Use symmetric threshold for identifying unit quaternions on
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qform calculations (pr/1182) (CM, reviewed by MB)
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* Type annotations for nibabel.loadsave (pr/1213) and
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nibabel.spatialimages.SpatialImage APIs (pr/1179),
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nibabel.deprecated, nibabel.deprecator, nibabel.onetime and
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nibabel.optpkg modules (pr/1188), nibabel.volumeutils
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(pr/1189), nibabel.filename_parser and nibabel.openers
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(pr/1197) (CM, reviewed by Zvi Baratz)
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- Release 5.0
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## New features
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* SerializableImage now has to_stream() and from_stream() methods
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to read/write streams implementing the io.IOBase interface. A
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from_url() method enables loading images from URLs. (pr/1129)
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(CM, reviewed by MB)
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* TrkFile supports TRKv3, an undocumented but generally
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compatible variant of TRKv2. (pr/1125) (CM)
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## Enhancements
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* Support multiline header fields in TCKFile (pr/1175) (CM,
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reviewed by Matt Cieslak)
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* Make layout order an initialization parameter of ArrayProxy
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(pr/1131) (CM, reviewed by MB)
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* Initial support for type annotations. (pr/1115, pr/1178) (CM,
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reviewed by Zvi Baratz)
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## API changes and deprecations
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* Passing an int64 array to Nifti1Image without a header or dtype
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argument will raise a ValueError. (pr/1173) (CM)
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* tmpdirs.TemporaryDirectory is deprecated in favor of
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tempfile.TemporaryDirectory. (pr/1172) (CM, reviewed by Zvi
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Baratz)
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* The nisext package is deprecated and will be removed in NiBabel
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6.0. (pr/1170) (CM, reviewed by MB)
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* Drop support for Python 3.7, Numpy < 1.19 (pr/1177) (CM)
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* The following deprecated functions and methods will now raise
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ExpiredDeprecationErrors
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- nibabel.loadsave.read_img_data
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- nibabel.dataobj_images.DataobjImage.get_data
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- nibabel.loadsave.guessed_image_type
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- nibabel.onetime.setattr_on_read
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- nibabel.orientations.flip_axis
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* Modules, classes and functions that expired at 4.0 were fully
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removed. ExpiredDeprecationError will now be
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AttributeError.
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-------------------------------------------------------------------
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Thu Oct 6 14:07:18 UTC 2022 - Markéta Machová <mmachova@suse.com>
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- Update to 4.0.2
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* many changes, see Changelog
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* nib-convert CLI tool to make image type and data dtype conversion
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accessible via the command line.
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* Allow dtypes to be passed to Analyze-like images at __init__()
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and to_filename()
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* Allow compressed GIFTI images
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* Add zstd compression support
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* Test on Python 3.10
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* Passing (u)int64 arrays to Nifti1Image and subclasses will warn
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unless a header or dtype option is passed; in the future this will
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become an error. Additionally, passing int or 'int' to set_data_dtype()
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now raises an error, requiring an explicit numpy dtype to make 64-bit
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integer images.
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* Drop support for Python 3.6, Numpy < 1.17
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* Fully removed the APIs, which have raised errors on use since 3.0
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- Drop upstreamed 983.patch and purge-nose.patch
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-------------------------------------------------------------------
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Wed Mar 31 09:09:56 UTC 2021 - Guillaume GARDET <guillaume.gardet@opensuse.org>
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- Add upstream patch to fix test on Backports:SLE-15-SP3:
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* 983.patch
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-------------------------------------------------------------------
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Fri Feb 12 14:37:36 UTC 2021 - Dirk Müller <dmueller@suse.com>
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- skip python 36
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-------------------------------------------------------------------
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Fri Jul 10 09:06:52 UTC 2020 - Marketa Calabkova <mcalabkova@suse.com>
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- Update to 3.1.1
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* Conformation function (``processing.conform``) and CLI tool
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(``nib-conform``) to apply shape, orientation and zooms (pr/853) (Jakub
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Kaczmarzyk, reviewed by CM, YOH)
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* Affine rescaling function (``affines.rescale_affine``) to update
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dimensions and voxel sizes (pr/853) (CM, reviewed by Jakub Kaczmarzyk)
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* ``kw_only_meth``/``kw_only_func`` decorators are deprecated (pr/848)
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(RM, reviewed by CM)
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- Add patch purge-nose.patch
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-------------------------------------------------------------------
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Thu May 21 10:56:36 UTC 2020 - Petr Gajdos <pgajdos@suse.com>
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- %python3_only -> %python_alternative
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-------------------------------------------------------------------
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Fri Mar 6 08:07:25 UTC 2020 - Tomáš Chvátal <tchvatal@suse.com>
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- Update to 3.0.1:
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* Test failed by using array method on tuple. (pr/860) (Ben Darwin, reviewed by CM)
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* Validate ExpiredDeprecationErrors, promoted by 3.0 release from DeprecationWarnings. (pr/857) (CM)
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* Improve testing of data scaling in ArrayProxy API (pr/847) (CM, reviewed by Alejandro de la Vega)
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* Document SpatialImage.slicer interface (pr/846) (CM)
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* 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)
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* 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)
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* Warn, rather than fail, on DICOMs with unreadable Siemens CSA tags (pr/818) (Henry Braun, reviewed by CM)
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* Improve clarity of coordinate system tutorial (pr/823) (Egor Panfilov, reviewed by MB)
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-------------------------------------------------------------------
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Tue Nov 19 20:41:07 UTC 2019 - Todd R <toddrme2178@gmail.com>
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- Update to version 2.5.1
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+ Enhancements
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* Ignore endianness in ``nib-diff`` if values match
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+ Bug fixes
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* Correctly handle Philips DICOMs w/ derived volume
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* Raise CSA tag limit to 1000, parametrize for future relaxing
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* Coerce data types to match NIfTI intent codes when writing GIFTI data
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arrays
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+ Maintenance
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* Require h5py 2.10 for Windows + Python < 3.6 to resolve unexpected dtypes
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in Minc2 data
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+ API changes and deprecations
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* Deprecate ``nicom.dicomwrappers.Wrapper.get_affine()`` in favor of ``affine``
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property; final removal in nibabel 4.0
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- Update to version 2.5.0
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+ Enhancements
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* Add SerializableImage class with to/from_bytes methods
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* Check CIFTI-2 data shape matches shape described by header
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+ Bug fixes
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* Handle stricter numpy casting rules in tests
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* TRK header fields flipped in files written on big-endian systems
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* Load multiframe ECAT images with Python 3
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+ Maintenance
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* Fix CodeCov paths on Appveyor for more accurate coverage
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* Move to setuptools and reduce use ``nisext`` functions
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* Better handle test setup/teardown
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+ API changes and deprecations
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* Effect threatened warnings and set some deprecation timelines
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* Trackvis methods now default to v2 formats
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* ``nibabel.trackvis`` scheduled for removal in nibabel 4.0
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* ``nibabel.minc`` and ``nibabel.MincImage`` will be removed in nibabel 3.0
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- Drop upstream-included fix_numpy_1_17.patch
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-------------------------------------------------------------------
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Mon Jul 29 18:56:10 UTC 2019 - Todd R <toddrme2178@gmail.com>
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- Add fix_numpy_1_17.patch to fix building with numpy 1.17.0
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From: gh#/nipy/nibabel#768
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-------------------------------------------------------------------
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Fri Jul 26 14:21:33 UTC 2019 - Todd R <toddrme2178@gmail.com>
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- Initial version
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