diff options
| author | CoprDistGit <infra@openeuler.org> | 2023-05-31 05:00:34 +0000 |
|---|---|---|
| committer | CoprDistGit <infra@openeuler.org> | 2023-05-31 05:00:34 +0000 |
| commit | 36e7450eb2a47dd7581d30337f4b4a5f25dfa126 (patch) | |
| tree | 4b0f179a9a1f79b1d07f3b9c085e18ce76a63fc5 | |
| parent | 9166a8d1ddd5626d9228da69f262d7e198128e0a (diff) | |
automatic import of python-nitransforms
| -rw-r--r-- | .gitignore | 1 | ||||
| -rw-r--r-- | python-nitransforms.spec | 213 | ||||
| -rw-r--r-- | sources | 1 |
3 files changed, 215 insertions, 0 deletions
@@ -0,0 +1 @@ +/nitransforms-22.0.0.tar.gz diff --git a/python-nitransforms.spec b/python-nitransforms.spec new file mode 100644 index 0000000..0fb371d --- /dev/null +++ b/python-nitransforms.spec @@ -0,0 +1,213 @@ +%global _empty_manifest_terminate_build 0 +Name: python-nitransforms +Version: 22.0.0 +Release: 1 +Summary: NiTransforms -- Neuroimaging spatial transforms in Python. +License: MIT License +URL: https://github.com/poldracklab/nitransforms +Source0: https://mirrors.nju.edu.cn/pypi/web/packages/84/d3/0b688d199c450d6904b88da60cac5eac4506973792dc58ae7a12f3521fc3/nitransforms-22.0.0.tar.gz +BuildArch: noarch + +Requires: python3-nibabel +Requires: python3-h5py +Requires: python3-numpy +Requires: python3-scipy +Requires: python3-numpy +Requires: python3-scipy +Requires: python3-lxml +Requires: python3-pytest +Requires: python3-pytest-cov +Requires: python3-codecov +Requires: python3-lxml +Requires: python3-lxml +Requires: python3-pytest +Requires: python3-pytest-cov +Requires: python3-codecov +Requires: python3-pytest +Requires: python3-pytest-cov +Requires: python3-codecov + +%description +# NiTransforms +[](https://doi.org/10.21105/joss.03459) +[](https://doi.org/10.31219/osf.io/8aq7b) +[](https://github.com/poldracklab/nitransforms/actions/workflows/travis.yml) +[](https://circleci.com/gh/poldracklab/nitransforms) +[](https://codecov.io/gh/poldracklab/nitransforms) +[](https://mybinder.org/v2/gh/poldracklab/nitransforms/master?filepath=docs%2Fnotebooks%2F) +[](http://nitransforms.readthedocs.io/en/latest/?badge=latest) + +A development repo for [nipy/nibabel#656](https://github.com/nipy/nibabel/pull/656) + +## About +Spatial transforms formalize mappings between coordinates of objects in biomedical images. +Transforms typically are the outcome of image registration methodologies, which estimate +the alignment between two images. +Image registration is a prominent task present in nearly all standard image processing +and analysis pipelines. +The proliferation of software implementations of image registration methodologies has +resulted in a spread of data structures and file formats used to preserve and communicate +transforms. +This segregation of formats precludes the compatibility between tools and endangers the +reproducibility of results. +We propose a software tool capable of converting between formats and resampling images +to apply transforms generated by the most popular neuroimaging packages and libraries +(AFNI, FSL, FreeSurfer, ITK, and SPM). +The proposed software is subject to continuous integration tests to check the +compatibility with each supported tool after every change to the code base. +Compatibility between software tools and imaging formats is a necessary bridge +to ensure the reproducibility of results and enable the optimization and evaluation +of current image processing and analysis workflows. + +## Integration with *NiBabel* +*NiTransforms* started as a feature-repo spun off of *NiBabel*. +Shortly after starting with [nipy/nibabel#656](https://github.com/nipy/nibabel/pull/656), it became apparent that it was going to build up in a humongous PR nobody would be able to review as thoroughly as it would require. +Also, *NiTransforms* has many connections to BIDS/BIDS-Derivatives and its X5 format specification for transforms, which falls outside of the current scope of *NiBabel*. + +The plan is to make it an isolated tool, and once it is pertinent, proceed with the integration into *NiBabel*. +Once this repository is ready for integration, we will define what can go into *NiBabel* (presumably everything, except perhaps some final details of the X5 implementation, although *NiBabel* will support the data structure at least logically). +This is to say that the chances that NiTransforms is integrated into NiBabel are high and scheduled to happen in ~2022 Q2. + + + + +%package -n python3-nitransforms +Summary: NiTransforms -- Neuroimaging spatial transforms in Python. +Provides: python-nitransforms +BuildRequires: python3-devel +BuildRequires: python3-setuptools +BuildRequires: python3-pip +%description -n python3-nitransforms +# NiTransforms +[](https://doi.org/10.21105/joss.03459) +[](https://doi.org/10.31219/osf.io/8aq7b) +[](https://github.com/poldracklab/nitransforms/actions/workflows/travis.yml) +[](https://circleci.com/gh/poldracklab/nitransforms) +[](https://codecov.io/gh/poldracklab/nitransforms) +[](https://mybinder.org/v2/gh/poldracklab/nitransforms/master?filepath=docs%2Fnotebooks%2F) +[](http://nitransforms.readthedocs.io/en/latest/?badge=latest) + +A development repo for [nipy/nibabel#656](https://github.com/nipy/nibabel/pull/656) + +## About +Spatial transforms formalize mappings between coordinates of objects in biomedical images. +Transforms typically are the outcome of image registration methodologies, which estimate +the alignment between two images. +Image registration is a prominent task present in nearly all standard image processing +and analysis pipelines. +The proliferation of software implementations of image registration methodologies has +resulted in a spread of data structures and file formats used to preserve and communicate +transforms. +This segregation of formats precludes the compatibility between tools and endangers the +reproducibility of results. +We propose a software tool capable of converting between formats and resampling images +to apply transforms generated by the most popular neuroimaging packages and libraries +(AFNI, FSL, FreeSurfer, ITK, and SPM). +The proposed software is subject to continuous integration tests to check the +compatibility with each supported tool after every change to the code base. +Compatibility between software tools and imaging formats is a necessary bridge +to ensure the reproducibility of results and enable the optimization and evaluation +of current image processing and analysis workflows. + +## Integration with *NiBabel* +*NiTransforms* started as a feature-repo spun off of *NiBabel*. +Shortly after starting with [nipy/nibabel#656](https://github.com/nipy/nibabel/pull/656), it became apparent that it was going to build up in a humongous PR nobody would be able to review as thoroughly as it would require. +Also, *NiTransforms* has many connections to BIDS/BIDS-Derivatives and its X5 format specification for transforms, which falls outside of the current scope of *NiBabel*. + +The plan is to make it an isolated tool, and once it is pertinent, proceed with the integration into *NiBabel*. +Once this repository is ready for integration, we will define what can go into *NiBabel* (presumably everything, except perhaps some final details of the X5 implementation, although *NiBabel* will support the data structure at least logically). +This is to say that the chances that NiTransforms is integrated into NiBabel are high and scheduled to happen in ~2022 Q2. + + + + +%package help +Summary: Development documents and examples for nitransforms +Provides: python3-nitransforms-doc +%description help +# NiTransforms +[](https://doi.org/10.21105/joss.03459) +[](https://doi.org/10.31219/osf.io/8aq7b) +[](https://github.com/poldracklab/nitransforms/actions/workflows/travis.yml) +[](https://circleci.com/gh/poldracklab/nitransforms) +[](https://codecov.io/gh/poldracklab/nitransforms) +[](https://mybinder.org/v2/gh/poldracklab/nitransforms/master?filepath=docs%2Fnotebooks%2F) +[](http://nitransforms.readthedocs.io/en/latest/?badge=latest) + +A development repo for [nipy/nibabel#656](https://github.com/nipy/nibabel/pull/656) + +## About +Spatial transforms formalize mappings between coordinates of objects in biomedical images. +Transforms typically are the outcome of image registration methodologies, which estimate +the alignment between two images. +Image registration is a prominent task present in nearly all standard image processing +and analysis pipelines. +The proliferation of software implementations of image registration methodologies has +resulted in a spread of data structures and file formats used to preserve and communicate +transforms. +This segregation of formats precludes the compatibility between tools and endangers the +reproducibility of results. +We propose a software tool capable of converting between formats and resampling images +to apply transforms generated by the most popular neuroimaging packages and libraries +(AFNI, FSL, FreeSurfer, ITK, and SPM). +The proposed software is subject to continuous integration tests to check the +compatibility with each supported tool after every change to the code base. +Compatibility between software tools and imaging formats is a necessary bridge +to ensure the reproducibility of results and enable the optimization and evaluation +of current image processing and analysis workflows. + +## Integration with *NiBabel* +*NiTransforms* started as a feature-repo spun off of *NiBabel*. +Shortly after starting with [nipy/nibabel#656](https://github.com/nipy/nibabel/pull/656), it became apparent that it was going to build up in a humongous PR nobody would be able to review as thoroughly as it would require. +Also, *NiTransforms* has many connections to BIDS/BIDS-Derivatives and its X5 format specification for transforms, which falls outside of the current scope of *NiBabel*. + +The plan is to make it an isolated tool, and once it is pertinent, proceed with the integration into *NiBabel*. +Once this repository is ready for integration, we will define what can go into *NiBabel* (presumably everything, except perhaps some final details of the X5 implementation, although *NiBabel* will support the data structure at least logically). +This is to say that the chances that NiTransforms is integrated into NiBabel are high and scheduled to happen in ~2022 Q2. + + + + +%prep +%autosetup -n nitransforms-22.0.0 + +%build +%py3_build + +%install +%py3_install +install -d -m755 %{buildroot}/%{_pkgdocdir} +if [ -d doc ]; then cp -arf doc %{buildroot}/%{_pkgdocdir}; fi +if [ -d docs ]; then cp -arf docs %{buildroot}/%{_pkgdocdir}; fi +if [ -d example ]; then cp -arf example %{buildroot}/%{_pkgdocdir}; fi +if [ -d examples ]; then cp -arf examples %{buildroot}/%{_pkgdocdir}; fi +pushd %{buildroot} +if [ -d usr/lib ]; then + find usr/lib -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/lib64 ]; then + find usr/lib64 -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/bin ]; then + find usr/bin -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/sbin ]; then + find usr/sbin -type f -printf "/%h/%f\n" >> filelist.lst +fi +touch doclist.lst +if [ -d usr/share/man ]; then + find usr/share/man -type f -printf "/%h/%f.gz\n" >> doclist.lst +fi +popd +mv %{buildroot}/filelist.lst . +mv %{buildroot}/doclist.lst . + +%files -n python3-nitransforms -f filelist.lst +%dir %{python3_sitelib}/* + +%files help -f doclist.lst +%{_docdir}/* + +%changelog +* Wed May 31 2023 Python_Bot <Python_Bot@openeuler.org> - 22.0.0-1 +- Package Spec generated @@ -0,0 +1 @@ +9fcfe380e236dc7fb30c0f05d17cab87 nitransforms-22.0.0.tar.gz |