Updated/fixed some links in the docs

[skip ci]
NeuralEnsemble · Sep 30, 2019 · a9b1441 · a9b1441
1 parent 45482d3
commit a9b1441
Show file tree

Hide file tree

Showing 10 changed files with 41 additions and 39 deletions.
diff --git a/doc/source/authors.rst b/doc/source/authors.rst
@@ -50,6 +50,7 @@ and may not be the current affiliation of a contributor.
 * Alexander Kleinjohann
 * Christian Kothe
 * rishidhingra@github
+* Hugo van Kemenade
 
 1. Centre de Recherche en Neuroscience de Lyon, CNRS UMR5292 - INSERM U1028 - Universite Claude Bernard Lyon 1
 2. Unité de Neuroscience, Information et Complexité, CNRS UPR 3293, Gif-sur-Yvette, France

diff --git a/doc/source/developers_guide.rst b/doc/source/developers_guide.rst
@@ -33,7 +33,7 @@ patch (see below) and attach it to the ticket.
 
 To keep track of changes to the code and to tickets, you can register for
 a GitHub account and then set to watch the repository at `GitHub Repository`_
-(see https://help.github.com/articles/watching-repositories/).
+(see https://help.github.com/en/articles/watching-and-unwatching-repositories).
 
 Requirements
 ------------
@@ -58,13 +58,13 @@ Getting the source code
 We use the Git version control system. The best way to contribute is through
 GitHub_. You will first need a GitHub account, and you should then fork the
 repository at `GitHub Repository`_
-(see http://help.github.com/fork-a-repo/).
+(see http://help.github.com/en/articles/fork-a-repo).
 
 To get a local copy of the repository::
 
     $ cd /some/directory
     $ git clone [email protected]:<username>/python-neo.git
-    
+
 Now you need to make sure that the ``neo`` package is on your PYTHONPATH.
 You can do this either by installing Neo::
 
@@ -194,7 +194,7 @@ You can then push your changes to your online repository on GitHub::
 
 Once you think your changes are ready to be included in the main Neo repository,
 open a pull request on GitHub
-(see https://help.github.com/articles/using-pull-requests).
+(see https://help.github.com/en/articles/about-pull-requests).
 
 
 Python version
@@ -264,7 +264,7 @@ Michael Denker and Julia Sprenger have the necessary permissions to do this)::
 
 .. talk about readthedocs
 
-    
+
 
 .. make a release branch
 
@@ -277,24 +277,24 @@ See :ref:`io_dev_guide` for implementation of a new IO.
 
 
 
-.. _Python: http://www.python.org
-.. _nose: http://somethingaboutorange.com/mrl/projects/nose/
+.. _Python: https://www.python.org
+.. _nose: https://nose.readthedocs.io/
 .. _Setuptools: https://pypi.python.org/pypi/setuptools/
 .. _tox: http://codespeak.net/tox/
-.. _coverage: http://nedbatchelder.com/code/coverage/
-.. _`PEP 8`: http://www.python.org/dev/peps/pep-0008/
+.. _coverage: https://coverage.readthedocs.io/
+.. _`PEP 8`: https://www.python.org/dev/peps/pep-0008/
 .. _`issue tracker`: https://github.com/NeuralEnsemble/python-neo/issues
 .. _`Porting to Python 3`: http://python3porting.com/
-.. _`NeuralEnsemble Google group`: http://groups.google.com/group/neuralensemble
+.. _`NeuralEnsemble Google group`: https://groups.google.com/forum/#!forum/neuralensemble
 .. _reStructuredText: http://docutils.sourceforge.net/rst.html
-.. _Sphinx: http://sphinx.pocoo.org/
-.. _numpy: http://numpy.scipy.org/
-.. _quantities: http://pypi.python.org/pypi/quantities
-.. _PEP257: http://www.python.org/dev/peps/pep-0257/
-.. _PEP394: http://www.python.org/dev/peps/pep-0394/
-.. _PyPI: http://pypi.python.org
-.. _GitHub: http://github.com
+.. _Sphinx: http://www.sphinx-doc.org/
+.. _numpy: https://numpy.org/
+.. _quantities: https://pypi.org/project/quantities/
+.. _PEP257: https://www.python.org/dev/peps/pep-0257/
+.. _PEP394: https://www.python.org/dev/peps/pep-0394/
+.. _PyPI: https://pypi.org
+.. _GitHub: https://github.com
 .. _`GitHub Repository`: https://github.com/NeuralEnsemble/python-neo/
-.. _pep8: https://pypi.python.org/pypi/pep8
-.. _flake8: https://pypi.python.org/pypi/flake8/
-.. _pyflakes: https://pypi.python.org/pypi/pyflakes/
+.. _pep8: https://pypi.org/project/pep8/
+.. _flake8: https://pypi.org/project/flake8/
+.. _pyflakes: https://pypi.org/project/pyflakes/
diff --git a/doc/source/index.rst b/doc/source/index.rst
@@ -82,10 +82,10 @@ Citation
 .. _Elephant: http://neuralensemble.org/elephant
 .. _G-node: http://www.g-node.org/
 .. _Neuroshare: http://neuroshare.org/
-.. _SpykeViewer: https://spyke-viewer.readthedocs.org/en/latest/
+.. _SpykeViewer: https://spyke-viewer.readthedocs.io/en/latest/
 .. _NiBabel: https://nipy.org/nibabel/
 .. _PyNN: http://neuralensemble.org/PyNN
-.. _quantities: http://pypi.python.org/pypi/quantities
+.. _quantities: https://pypi.org/project/quantities/
 .. _`NeuralEnsemble mailing list`: https://groups.google.com/forum/#!forum/neuralensemble
 .. _`issue tracker`: https://github.com/NeuralEnsemble/python-neo/issues
 .. _tridesclous: https://github.com/tridesclous/tridesclous

diff --git a/doc/source/install.rst b/doc/source/install.rst
@@ -78,9 +78,9 @@ To install the latest version of Neo from the Git repository::
     $ python setup.py install
 
 
-.. _`Python`: http://python.org/
-.. _`numpy`: http://numpy.scipy.org/
-.. _`quantities`: http://pypi.python.org/pypi/quantities
-.. _`pip`: http://pypi.python.org/pypi/pip
+.. _`Python`: https://www.python.org/
+.. _`numpy`: https://numpy.org/
+.. _`quantities`: https://pypi.org/project/quantities/
+.. _`pip`: https://pypi.org/project/pip/
 .. _`setuptools`: http://pypi.python.org/pypi/setuptools
-.. _Anaconda: https://www.continuum.io/downloads
+.. _Anaconda: https://www.anaconda.com/distribution/
diff --git a/doc/source/io.rst b/doc/source/io.rst
@@ -298,4 +298,4 @@ For more complex logging, please see the documentation for the logging_ module.
           Further, the handler is only attached if there are no handlers already attached to the root logger or the :mod:`neo` logger, so adding your own logger will override the default one.
           Additional functions and/or classes may get logging during bugfix releases, so code relying on particular modules not having logging may break at any time without warning.
 
-.. _`logging`: http://docs.python.org/library/logging.html
+.. _`logging`: https://docs.python.org/3/library/logging.html
diff --git a/doc/source/io_developers_guide.rst b/doc/source/io_developers_guide.rst
@@ -105,5 +105,5 @@ Here are the entire files:
 .. literalinclude:: ../../neo/io/exampleio.py
 
 
-.. _`mailing list`: http://groups.google.com/group/neuralensemble
-.. _gin-gnode: https://web.gin.g-node.org/NeuralEnsemble/ephy_testing_data
+.. _`mailing list`: https://groups.google.com/forum/#!forum/neuralensemble
+.. _gin-gnode: https://gin.g-node.org/NeuralEnsemble/ephy_testing_data
diff --git a/doc/source/releases/0.5.0.rst b/doc/source/releases/0.5.0.rst
@@ -132,4 +132,4 @@ Other changes
 .. https://github.com/NeuralEnsemble/python-neo/issues?utf8=✓&q=is%3Aissue%20is%3Aclosed%20created%3A%3E2014-02-01%20
 
 .. _`about the NIX format`: https://github.com/G-Node/nix/wiki
-.. _`NEST simulator`: http://nest-simulator.org
+.. _`NEST simulator`: https://www.nest-simulator.org/
diff --git a/doc/source/releases/0.6.0.rst b/doc/source/releases/0.6.0.rst
@@ -8,7 +8,7 @@ Major changes:
   * Introduced :mod:`neo.rawio`: a low-level reader for various data formats
   * Added continuous integration for all IOs using CircleCI
     (previously only :mod:`neo.core` was tested, using Travis CI)
-  * Moved the test file repository to https://web.gin.g-node.org/NeuralEnsemble/ephy_testing_data
+  * Moved the test file repository to https://gin.g-node.org/NeuralEnsemble/ephy_testing_data
     - this makes it easier for people to contribute new files for testing.
 
 Other important changes:

diff --git a/doc/source/releases/0.8.0.rst b/doc/source/releases/0.8.0.rst
@@ -74,6 +74,7 @@ Other new features
   * Numpy 1.16+ compatibility
   * :meth:`time_shift()` method for :class:`Epoch`/:class:`Event`/:class:`AnalogSignal`
   * :meth:`time_slice()` method is now more robust
+  * dropped support for Python 3.4
 
 See all `pull requests`_ included in this release and the `list of closed issues`_.
 
@@ -100,7 +101,7 @@ Bug fixes and improvements in IO modules
 Acknowledgements
 ----------------
 
-Thanks to Achileas Koutsou, Chek Yin Choi, Richard C. Gerkin,
+Thanks to Achileas Koutsou, Chek Yin Choi, Richard C. Gerkin, Hugo van Kemenade,
 Alexander Kleinjohann, Björn Müller, Jeffrey Gill, Christian Kothe,
 Mike Sintsov, @rishidhingra, Michael Denker, Julia Sprenger, Corentin Fragnaud,
 Andrew Davison and Samuel Garcia for their contributions to this release.

diff --git a/doc/source/whatisnew.rst b/doc/source/whatisnew.rst
@@ -5,7 +5,7 @@ Release notes
 
 .. toctree::
    :maxdepth: 1
-   
+
    releases/0.8.0.rst
    releases/0.7.2.rst
    releases/0.7.1.rst
@@ -14,8 +14,8 @@ Release notes
    releases/0.5.2.rst
    releases/0.5.1.rst
    releases/0.5.0.rst
-   
-   
+
+
 
 ..   releases/0.2.0.rst
 ..   releases/0.2.1.rst
@@ -76,8 +76,8 @@ Version 0.2.1
  * added :func:`time_slice()` method to the :class:`SpikeTrain` and :class:`AnalogSignalArray` classes.
  * improvements to annotation data type handling
  * added PickleIO, allowing saving Neo objects in the Python pickle format.
- * added ElphyIO (see http://www.unic.cnrs-gif.fr/software.html)
- * added BrainVisionIO (see http://www.brainvision.com/)
+ * added ElphyIO (see http://neuro-psi.cnrs.fr/spip.php?article943)
+ * added BrainVisionIO (see https://brainvision.com/)
  * improvements to PlexonIO
  * added :func:`merge()` method to the :class:`Block` and :class:`Segment` classes
  * development was mostly moved to GitHub, although the issue tracker is still at neuralensemble.org/neo
@@ -99,4 +99,4 @@ New features compared to neo 0.1:
 
 
 
-.. _quantities: http://pypi.python.org/pypi/quantities
+.. _quantities: https://pypi.org/project/quantities/