Commit 4be2491b authored by Andreas Tille's avatar Andreas Tille
Browse files

New upstream version 2.5.1

parent 2af1e1ee

debian/changelog

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nibabel (2.5.1-3) unstable; urgency=medium



  * Team upload.

  * Take over package in Debian Med team maintenance

  * cme fix dpkg-control

     - Priotity optional instead of extra

     - Drop some unneeded versioned dependencies

     - Formatting

  * Breaks+Replaces: python-nibabel

    Closes: #948372

  * Use default Debian Med repository layout for Git repository



 -- Andreas Tille <tille@debian.org>  Mon, 20 Jan 2020 11:00:59 +0100



nibabel (2.5.1-2) unstable; urgency=medium



  * Team upload.

  * Drop python2 support; Closes: #937140



 -- Sandro Tosi <morph@debian.org>  Sat, 04 Jan 2020 16:52:40 -0500



nibabel (2.5.1-1) unstable; urgency=medium



  * Fresh 2.5.1 release (2.5.x series is the last one to support python2)

  * debian/control

    - boosted policy to 4.4.1

    - Stripped XS- for Testsuite

  * debian/copyright

    - removed obsolete paragraph for no longer included 

      doc/sphinxext/autosummary

  * rm debian/patches/lenny-dsc-patch_numpy_testing - no backports for lenny

    were built for years



 -- Yaroslav Halchenko <debian@onerussian.com>  Sun, 10 Nov 2019 18:09:36 -0500



nibabel (2.5.0-1) unstable; urgency=medium



  * Fresh 2.5.0 release

    - many fixes (including .trk files failing tests on s390)

    - some API deprecations



 -- Yaroslav Halchenko <debian@onerussian.com>  Mon, 05 Aug 2019 09:52:19 -0400



nibabel (2.4.1-1) experimental; urgency=medium



  * Fresh upstream release



 -- Yaroslav Halchenko <debian@onerussian.com>  Tue, 28 May 2019 09:35:14 -0400



nibabel (2.4.0-1) experimental; urgency=medium



  * Fresh upstream release



 -- Yaroslav Halchenko <debian@onerussian.com>  Tue, 02 Apr 2019 09:39:01 -0400



nibabel (2.3.2-1) unstable; urgency=medium



  * Fresh upstream release



 -- Yaroslav Halchenko <debian@onerussian.com>  Fri, 04 Jan 2019 23:35:50 -0500



nibabel (2.3.1+git51-g1ea7c30f-1) unstable; urgency=medium



  * Fresh upstream snapshot from rel/2.3.2 branch

    https://github.com/nipy/nibabel/pull/708

    - should resolve incompatibilities with recent release of numpy

      causing " cannot set WRITEABLE flag to True ..." (Closes: #917680)

  * debian/control

    + added (build-)depends on python-bz2file (python2 only)

    + build-depend on dh-python

    - remove obsolete X-*-Python fields

    + b-depend on python{3,}-setuptools since used now, and not pulled

      through depends on older Debian/Ubuntus



 -- Yaroslav Halchenko <debian@onerussian.com>  Tue, 01 Jan 2019 19:53:57 -0500



nibabel (2.3.1-1) unstable; urgency=medium



  * Fresh upstream release

    - should address failures in examples (Closes: #909990)

  * debian/control

    * unify Suggests and Recommends between python{3,}-nibabel pkgs:

      - docs and test helpers are in Suggests, the rest in Recommends



 -- Yaroslav Halchenko <debian@onerussian.com>  Wed, 17 Oct 2018 23:45:47 -0400



nibabel (2.3.0-1) unstable; urgency=medium



  * Fresh upstream release



 -- Yaroslav Halchenko <debian@onerussian.com>  Wed, 13 Jun 2018 08:45:41 -0700



nibabel (2.3.0~a1+git235-gc644d808-1) neurodebian-devel; urgency=medium



  * New upstream snapshot from 2.2.1-235-gc644d808 (pre-2.3.0 release)



 -- Yaroslav Halchenko <debian@onerussian.com>  Mon, 04 Jun 2018 09:01:13 -0400



nibabel (2.2.1-2) unstable; urgency=medium



  * debian/control

    - Explicitly depend on python{,3}-six module (Closes: #896275)

    - Adjusted VCS- fields to point to salsa

    - Boosted debhelper compat to 9

    - use python3:Depends for python3- pkg



 -- Yaroslav Halchenko <debian@onerussian.com>  Mon, 23 Apr 2018 20:35:21 -0400



nibabel (2.2.1-1) unstable; urgency=medium



  * Fresh upstream bugfix release



 -- Yaroslav Halchenko <debian@onerussian.com>  Wed, 22 Nov 2017 23:01:06 -0500



nibabel (2.2.0+git11-g2139ce0d-1) unstable; urgency=medium



  * New upstream snapshot from 2.2.0-11-g2139ce0d

    - closes some outstanding issues and compatibility problems (Closes:

      #880234)



 -- Yaroslav Halchenko <debian@onerussian.com>  Tue, 07 Nov 2017 16:43:21 -0500



nibabel (2.2.0-1) unstable; urgency=medium



  * Fresh upstream release



 -- Yaroslav Halchenko <debian@onerussian.com>  Fri, 13 Oct 2017 20:26:14 -0400



nibabel (2.1.0-1) unstable; urgency=medium



  * Fresh upstream release

  * debian/control

    - python-numpydoc into build-depends

    - boosted policy to 3.9.8

    - python{,3}-mock to Build-Depends/Recommends for tests

  * debian/rules

    - use installed scripts (with corrected shebang) while generating manpages

    - export MPLCONFIGDIR to point to writable local directory



 -- Yaroslav Halchenko <debian@onerussian.com>  Fri, 26 Aug 2016 22:41:53 -0400



nibabel (2.0.2-2) unstable; urgency=medium



  * debian/tests/control: needs python3-nibabel for testing itself



 -- Yaroslav Halchenko <debian@onerussian.com>  Mon, 30 Nov 2015 09:28:09 -0500



nibabel (2.0.2-1) unstable; urgency=medium



  * Fresh upstream bugfix release

  * debian/tests - provided ADT tests based on RFed to be used without

    modifications runner from patsy



 -- Yaroslav Halchenko <debian@onerussian.com>  Mon, 23 Nov 2015 19:17:48 -0500



nibabel (2.0.1-3) unstable; urgency=medium



  * debian/patches

    - changeset_ea65e90a97fc8c9929b6a93d6c5657111489573b.diff

      cherry-picked from upstream to resolve issues with Python 3.5 doctest

      machinery which lead to FTBFS whenever optional pydicom wasn't avail

      (Closes: #802408)

    - deb_localmathjax

      to use locally available mathjax



 -- Yaroslav Halchenko <debian@onerussian.com>  Mon, 02 Nov 2015 11:08:23 -0500



nibabel (2.0.1-2) unstable; urgency=medium



  * Remove installed scripts before running install again.  Should

    really close #784697



 -- Yaroslav Halchenko <debian@onerussian.com>  Mon, 24 Aug 2015 21:40:38 -0400



nibabel (2.0.1-1) unstable; urgency=medium



  * Fresh upstream release

  * debian/rules

    - First install for python3 and then for python2 to get correct

      shebang in nib-ls (Closes: #784697)



 -- Yaroslav Halchenko <debian@onerussian.com>  Sun, 28 Jun 2015 01:06:52 -0400



nibabel (2.0.0-1) experimental; urgency=medium



  * New upstream release with lots of cool new features, which has minor

    API breakage

  * debian/watch

    - fixed up for github

  * debian/control

    - build-depend and depend for -doc package on mathjax.  There is nothing

      else we could do to make sphinx generate docs to use system-wide avail

      mathjax

    - policy boost to 3.9.6



 -- Yaroslav Halchenko <debian@onerussian.com>  Tue, 09 Dec 2014 18:42:38 -0500



nibabel (1.3.0+git476-g3ca7b94-1) neurodebian-devel; urgency=medium



  * New snapshot from 1.3.0-466-g27e4feb in preparation to new upstream

    release.

  * debian/control

    - added python-six and python-matplotlib (for documentation) to

      build-depends

  * debian/{control,rules}

    - drop pysupport in favor of dh*_python

    - add python3-nibabel



 -- Yaroslav Halchenko <debian@onerussian.com>  Tue, 05 Aug 2014 14:08:14 -0400



nibabel (1.3.0-2) sid; urgency=medium



  * Upload to sid (the freeze is long over ;))

  * debian/control

    - boosted policy to 3.9.5



 -- Yaroslav Halchenko <debian@onerussian.com>  Thu, 20 Mar 2014 21:08:09 -0400



nibabel (1.3.0-1) experimental; urgency=low



  * New upstream release



 -- Yaroslav Halchenko <debian@onerussian.com>  Tue, 11 Sep 2012 18:04:46 -0400



nibabel (1.2.2-1) unstable; urgency=low



  * New upstream bugfix release

    - addresses import and test failures on power7 (powerpc) causing FTBFS of

      nipy.



 -- Yaroslav Halchenko <debian@onerussian.com>  Wed, 27 Jun 2012 14:52:08 -0400



nibabel (1.2.1-1) unstable; urgency=low



  * New upstream bugfix release

    - new tools (nib-dicomfs, nib-nifti-dx)



 -- Yaroslav Halchenko <debian@onerussian.com>  Thu, 14 Jun 2012 00:15:09 -0400



nibabel (1.2.0-1) unstable; urgency=low



  * New upstream release: bugfixes, support for new formats

    (Freesurfer, ECAT, etc), nib-ls tool.

  * debian/copyright

    - corrected reference to the format specs

    - points to github's repository as the origin of sources

    - removed lightunit license/copyright -- removed upstream

    - added netcdf module license/copyright terms

  * debian/control

    - added python-fuse to Recommends and Build-Depends for dicomfs

    - boosted policy compliance to 3.9.3 (no further changes)

  * debian/watch

    - adjusted to download numbered tag



 -- Yaroslav Halchenko <debian@onerussian.com>  Sun, 06 May 2012 12:58:22 -0400



nibabel (1.1.0-1) unstable; urgency=low



  * New upstream release: better gifti and trackvis support, bugfixes.



 -- Yaroslav Halchenko <debian@onerussian.com>  Wed, 04 May 2011 16:44:55 -0400



nibabel (1.0.2-1) unstable; urgency=low



  * Fresh bugfix upstream release

  * debian/copyright:

    - changes to confirm to DEP5 rev 174

    - added myself

    - updated years

  * debian/control:

    - boosted policy compliance to 3.9.2 (no changes)

    - purged DM-Upload-Allowed (no need any more)

    - slight tune up of the long description



 -- Yaroslav Halchenko <debian@onerussian.com>  Thu, 28 Apr 2011 10:27:22 -0400



nibabel (1.0.0-1) unstable; urgency=low



  * Initial release (Closes: #600275).



 -- Michael Hanke <michael.hanke@gmail.com>  Fri, 15 Oct 2010 08:20:14 -0400

debian/compat

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9

debian/control

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Source: nibabel

Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>

Uploaders: Michael Hanke <michael.hanke@gmail.com>,

           Yaroslav Halchenko <debian@onerussian.com>

Section: python

Testsuite: autopkgtest

Priority: optional

Build-Depends: debhelper (>= 9~),

               dh-python,

               python3-fuse,

               python3-bz2file,

               python3-all,

               python3-numpy,

               python3-scipy,

               python3-nose,

               python3-six,

               python3-setuptools,

               help2man,

               python3-sphinx,

               python3-matplotlib,

               libjs-mathjax,

               python3-mock,

               python3-numpydoc

Standards-Version: 4.4.1

Vcs-Browser: https://salsa.debian.org/med-team/nibabel

Vcs-Git: https://salsa.debian.org/med-team/nibabel.git

Homepage: http://nipy.sourceforge.net/nibabel



Package: python3-nibabel

Architecture: all

Depends: ${misc:Depends},

         ${python3:Depends},

         python3-numpy,

         python3-scipy,

         python3-six

Recommends: python3-dicom,

            python3-fuse

Suggests: python-nibabel-doc,

          python3-mock

Breaks: python-nibabel

Replaces: python-nibabel

Description: Python3 bindings to various neuroimaging data formats

 NiBabel provides read and write access to some common medical and

 neuroimaging file formats, including: ANALYZE (plain, SPM99, SPM2), GIFTI,

 NIfTI1, MINC, as well as PAR/REC. The various image format classes give full

 or selective access to header (meta) information and access to the image data

 is made available via NumPy arrays.  NiBabel is the successor of PyNIfTI.



Package: python-nibabel-doc

Architecture: all

Section: doc

Depends: ${misc:Depends},

         libjs-jquery,

         libjs-mathjax

Description: documentation for NiBabel

 NiBabel provides read and write access to some common medical and

 neuroimaging file formats, including: ANALYZE (plain, SPM99, SPM2), GIFTI,

 NIfTI1, MINC, as well as PAR/REC. The various image format classes give full

 or selective access to header (meta) information and access to the image data

 is made available via NumPy arrays.  NiBabel is the successor of PyNIfTI.

 .

 This package provides the documentation in HTML format.

debian/copyright

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Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/

Upstream-Name: nibabel

Upstream-Contact: nipy-devel@neuroimaging.scipy.org

Source: https://github.com/nipy/nibabel



Files: *

Copyright: 2006-2011, Michael Hanke <michael.hanke@gmail.com>

           2009-2012, Matthew Brett <matthew.brett@gmail.com>

           2010-2011, Stephan Gerhard <git@unidesign.ch>

           2011,      Christian Haselgrove <christian.haselgrove@umassmed.edu>

           2010-2011, Jarrod Millman <jarrod.millman@gmail.com>

           2011-2012, Yaroslav Halchenko <debian@onerussian.com>

License: Expat



Files: nibabel/externals/*netcdf*

Copyright: 1999-2010, SciPy Developers <scipy-dev@scipy.org>

License: BSD-3





Files: debian/*

Copyright: 2006-2010, Michael Hanke <michael.hanke@gmail.com>

           2011-, Yaroslav Halchenko <debian@onerussian.com>

License: Expat





License: BSD-3

  Redistribution and use in source and binary forms, with or without

  modification, are permitted provided that the following conditions are met:

  .

    a. Redistributions of source code must retain the above copyright notice,

       this list of conditions and the following disclaimer.

    b. Redistributions in binary form must reproduce the above copyright

       notice, this list of conditions and the following disclaimer in the

       documentation and/or other materials provided with the distribution.

    c. Neither the name of the Enthought nor the names of its contributors

       may be used to endorse or promote products derived from this software

       without specific prior written permission.

  .

  THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"

  AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE

  IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE

  ARE DISCLAIMED. IN NO EVENT SHALL THE REGENTS OR CONTRIBUTORS BE LIABLE FOR

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  CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT

  LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY

  OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH

  DAMAGE.



License: Expat

  Permission is hereby granted, free of charge, to any person obtaining a copy

  of this software and associated documentation files (the "Software"), to deal

  in the Software without restriction, including without limitation the rights

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  THE SOFTWARE.

debian/patches/deb_localmathjax

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--- a/doc/source/conf.py

+++ b/doc/source/conf.py

@@ -242,7 +242,7 @@ html_show_sourcelink = True

 # Output file base name for HTML help builder.

 htmlhelp_basename = 'nibabeldoc'

 

-mathjax_path = 'https://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'

+mathjax_path = 'file:///usr/share/javascript/mathjax/MathJax.js'

 

 # -- Options for LaTeX output -------------------------------------------------