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Accepting request 1147056 from home:bnavigator:branches:devel:languages:python:numeric

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- 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.

OBS-URL: https://build.opensuse.org/request/show/1147056
OBS-URL: https://build.opensuse.org/package/show/devel:languages:python:numeric/python-nibabel?expand=0&rev=20
This commit is contained in:
Matej Cepl 2024-02-16 16:56:53 +00:00 committed by Git OBS Bridge
parent c84aa4e37b
commit a4851ee354
4 changed files with 114 additions and 35 deletions
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3
nibabel-4.0.2.tar.gz
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size 4804200

3
nibabel-5.2.0.tar.gz Normal file
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@ -0,0 +1,3 @@
version https://git-lfs.github.com/spec/v1
oid sha256:3df8f1ab981d1bd92f4331d565528d126ab9717fdbd4cfe68f43fcd1c2bf3f52
size 4501846

77
python-nibabel.changes
View File

@ -1,3 +1,80 @@
-------------------------------------------------------------------
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.
-------------------------------------------------------------------
Thu Oct 6 14:07:18 UTC 2022 - Markéta Machová <mmachova@suse.com>

66
python-nibabel.spec
View File

@ -1,7 +1,7 @@
#
# spec file for package python-nibabel
#
# Copyright (c) 2022 SUSE LLC
# Copyright (c) 2024 SUSE LLC
#
# All modifications and additions to the file contributed by third parties
# remain the property of their copyright owners, unless otherwise agreed
@ -16,35 +16,45 @@
#
%{?!python_module:%define python_module() python-%{**} python3-%{**}}
%define skip_python2 1
%define skip_python36 1
%define binaries nib-conform nib-convert nib-dicomfs nib-diff nib-ls nib-nifti-dx nib-roi nib-stats nib-tck2trk nib-trk2tck parrec2nii
Name: python-nibabel
Version: 4.0.2
Version: 5.2.0
Release: 0
Summary: Tool to access multiple neuroimaging data formats
License: MIT
URL: https://nipy.org/nibabel
# SourceRepository: https://github.com/nipy/nibabel
Source: https://files.pythonhosted.org/packages/source/n/nibabel/nibabel-%{version}.tar.gz
BuildRequires: %{python_module setuptools >= 30.3.0}
BuildRequires: %{pythons}
BuildRequires: %{python_module base >= 3.8}
BuildRequires: %{python_module hatch-vcs}
BuildRequires: %{python_module hatchling}
BuildRequires: %{python_module pip}
BuildRequires: fdupes
BuildRequires: python-rpm-macros
Requires: python-numpy >= 1.17
Requires: python-numpy >= 1.20
Requires: python-packaging => 17
Requires: (python-importlib-resources >= 1.3 if python-base < 3.9)
Requires(post): update-alternatives
Requires(postun):update-alternatives
Requires(postun): update-alternatives
Recommends: python-Pillow
Recommends: python-dicom >= 0.9.9
Recommends: python-h5py
Recommends: python-pydicom >= 1
Recommends: python-scipy
BuildArch: noarch
# SECTION test requirements
BuildRequires: %{python_module Pillow}
BuildRequires: %{python_module h5py}
BuildRequires: %{python_module numpy >= 1.17}
BuildRequires: %{python_module importlib-resources >= 1.3 if %python-base < 3.9}
BuildRequires: %{python_module numpy >= 1.20}
BuildRequires: %{python_module packaging >= 17}
BuildRequires: %{python_module pydicom >= 1}
BuildRequires: %{python_module pytest-doctestplus}
BuildRequires: %{python_module pytest-httpserver}
BuildRequires: %{python_module pytest-xdist}
BuildRequires: %{python_module pytest}
BuildRequires: %{python_module scipy}
BuildRequires: %{pythons}
BuildRequires: git-core
# /SECTION
%python_subpackages
@ -58,44 +68,36 @@ very limited support for DICOM.
%prep
%setup -q -n nibabel-%{version}
find nibabel -name .gitignore -delete
sed -i '1{/^!#/d}' nibabel/cmdline/*.py
chmod a-x nibabel/cmdline/*.py
chmod a-x nibabel/tests/data/umass_anonymized.PAR nibabel/gifti/tests/data/gzipbase64.gii nibabel/nicom/dicomwrappers.py nibabel/nicom/tests/test_dicomwrappers.py
%build
%python_build
%pyproject_wheel
%install
%python_install
%pyproject_install
for b in %{binaries}; do
%python_clone -a %{buildroot}%{_bindir}/$b
done
%python_expand %fdupes %{buildroot}%{$python_sitelib}
%check
%pytest
%pytest -n auto -rsfE
%post
for b in %{binaries}; do
%python_install_alternative $b
done
%{expand:%(for b in %{binaries}; do echo "%%python_install_alternative $b"; done)}
%postun
for b in %{binaries}; do
%python_uninstall_alternative $b
done
%{expand:%(for b in %{binaries}; do echo "%%python_uninstall_alternative $b"; done)}
%files %{python_files}
%doc AUTHOR Changelog README.rst
%license COPYING
%python_alternative %{_bindir}/nib-conform
%python_alternative %{_bindir}/nib-convert
%python_alternative %{_bindir}/nib-dicomfs
%python_alternative %{_bindir}/nib-diff
%python_alternative %{_bindir}/nib-ls
%python_alternative %{_bindir}/nib-nifti-dx
%python_alternative %{_bindir}/nib-roi
%python_alternative %{_bindir}/nib-stats
%python_alternative %{_bindir}/nib-tck2trk
%python_alternative %{_bindir}/nib-trk2tck
%python_alternative %{_bindir}/parrec2nii
%{python_sitelib}/*
%{expand:%(for b in %{binaries}; do echo "%%python_alternative %%{_bindir}/$b"; done)}
%{python_sitelib}/nibabel
%{python_sitelib}/nisext
%{python_sitelib}/nibabel-%{version}.dist-info
%changelog