changed links in docs and comments to SSL-encrypted site

- use https://www.mdanalysis.org and https://docs.mdanalysis.org - see MDAnalysis/MDAnalysis.github.io#61 and https://github.com/MDAnalysis/MDAnalysis.github.io/wiki/DNS for further details - command used: git grep -E -l 'http://(www|docs)?\.mdanalysis\.org' | grep -v CHANGELOG | xargs sed -i~ 's/http:\/\/www\.mdanalysis\.org/https:\/\/www.mdanalysis.org/;s/http:\/\/docs\.mdanalysis\.org/https:\/\/docs.mdanalysis.org/'
MDAnalysis · Oct 1, 2017 · 37834d0 · 37834d0
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diff --git a/README.rst b/README.rst
@@ -75,15 +75,15 @@ to find uncovered code.
        shown for the core library modules and the analysis modules (which
        excludes `MDAnalysis.visualization`_ at the moment).
 
-.. _trajectory formats: http://docs.mdanalysis.org/documentation_pages/coordinates/init.html#id1
-.. _topology formats: http://docs.mdanalysis.org/documentation_pages/topology/init.html#supported-topology-formats
+.. _trajectory formats: https://docs.mdanalysis.org/documentation_pages/coordinates/init.html#id1
+.. _topology formats: https://docs.mdanalysis.org/documentation_pages/topology/init.html#supported-topology-formats
 .. _Issue 87: https://github.com/MDAnalysis/mdanalysis/issues/87
-.. _MDAnalysis: http://www.mdanalysis.org
+.. _MDAnalysis: https://www.mdanalysis.org
 .. _LICENSE: https://github.com/MDAnalysis/mdanalysis/blob/master/LICENSE
 .. _`#286`: https://github.com/MDAnalysis/mdanalysis/issues/286
-.. _`MDAnalysis.analysis`: http://docs.mdanalysis.org/documentation_pages/analysis_modules.html
-.. _`MDAnalysis.visualization`: http://docs.mdanalysis.org/documentation_pages/visualization_modules.html
-.. _`tutorials`: http://www.mdanalysis.org/pages/learning_MDAnalysis/
+.. _`MDAnalysis.analysis`: https://docs.mdanalysis.org/documentation_pages/analysis_modules.html
+.. _`MDAnalysis.visualization`: https://docs.mdanalysis.org/documentation_pages/visualization_modules.html
+.. _`tutorials`: https://www.mdanalysis.org/pages/learning_MDAnalysis/
 .. _`guide`: https://github.com/MDAnalysis/mdanalysis/wiki/Guide-for-Developers
 
 .. |usergroup| image:: https://img.shields.io/badge/Google%20Group-Users-lightgrey.svg
@@ -96,11 +96,11 @@ to find uncovered code.
 
 .. |docs| image:: https://img.shields.io/badge/docs-latest-brightgreen.svg
    :alt: Documentation (latest release)
-   :target: http://docs.mdanalysis.org
+   :target: https://docs.mdanalysis.org
 
 .. |devdocs| image:: https://img.shields.io/badge/docs-development-yellow.svg
    :alt: Documentation (development version)
-   :target: http://www.mdanalysis.org/mdanalysis/
+   :target: https://www.mdanalysis.org/mdanalysis/
 
 .. |build| image:: https://travis-ci.org/MDAnalysis/mdanalysis.svg?branch=develop
     :alt: Build Status

diff --git a/benchmarks/asv.conf.json b/benchmarks/asv.conf.json
@@ -7,7 +7,7 @@
     "project": "mdanalysis",
 
     // The project's homepage
-    "project_url": "http://www.mdanalysis.org/",
+    "project_url": "https://www.mdanalysis.org/",
 
     // The URL of the source code repository for the project being
     // benchmarked

diff --git a/maintainer/conda/MDAnalysis/meta.yaml b/maintainer/conda/MDAnalysis/meta.yaml
@@ -48,7 +48,7 @@ test:
     - python -c 'import MDAnalysisTests; MDAnalysisTests.run(label="full", extra_argv=["-v", "--no-open-files"])'
 
 about:
-  home: http://www.mdanalysis.org
+  home: https://www.mdanalysis.org
   license: GPLv2
   license_file: package/LICENSE
   summary: 'MDAnalysis is a Python library to analyze molecular dynamics trajectories.'
diff --git a/package/CHANGELOG b/package/CHANGELOG
@@ -70,6 +70,8 @@ Changes
     the end of the file. Used to raise IOError.
   * Universe.load_new() now returns the universe itself instead of
     tuple (filename_or_array, trajectory_type) (Issue #1613)
+  * docs: URLs to (www|docs).mdanalysis.org now link to SSL-encrypted site
+    (see issue MDAnalysis/MDAnalysis.github.io#61)
 
 
 mm/dd/17 richardjgowers, rathann, jbarnoud, orbeckst, utkbansal

diff --git a/package/INSTALL b/package/INSTALL
@@ -5,7 +5,7 @@ Installing MDAnalysis
 Quick installation instructions
 ===============================
 
-http://www.mdanalysis.org/pages/installation_quick_start/
+https://www.mdanalysis.org/pages/installation_quick_start/
 
 
 From the Python package index (pip)
@@ -48,7 +48,7 @@ Help
 If you have any problems please read through the files INSTALL (this
 file) and README and check the MDAnalysis project pages at
 
-      http://www.mdanalysis.org
+      https://www.mdanalysis.org
 
 in particular https://github.com/MDAnalysis/mdanalysis/wiki/Install
 and related pages.

diff --git a/package/MDAnalysis/__init__.py b/package/MDAnalysis/__init__.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #
@@ -24,7 +24,7 @@
 :mod:`MDAnalysis` --- analysis of molecular simulations in python
 =================================================================
 
-MDAnalysis (http://www.mdanalysis.org) is a python toolkit to analyze
+MDAnalysis (https://www.mdanalysis.org) is a python toolkit to analyze
 molecular dynamics trajectories generated by CHARMM, NAMD, Amber,
 Gromacs, or LAMMPS.
 
@@ -49,12 +49,12 @@
     N. Michaud-Agrawal, E. J. Denning, T. B. Woolf, and
     O. Beckstein. MDAnalysis: A Toolkit for the Analysis of Molecular Dynamics
     Simulations. J. Comput. Chem. 32 (2011), 2319--2327, doi:`10.1002/jcc.21787`_
-    http://www.mdanalysis.org
+    https://www.mdanalysis.org
 
 For citations of included algorithms and sub-modules please see the references_.
 
 .. _`10.1002/jcc.21787`: http://dx.doi.org/10.1002/jcc.21787
-.. _references: http://docs.mdanalysis.org/documentation_pages/references.html
+.. _references: https://docs.mdanalysis.org/documentation_pages/references.html
 
 
 Getting started

diff --git a/package/MDAnalysis/analysis/__init__.py b/package/MDAnalysis/analysis/__init__.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/align.py b/package/MDAnalysis/analysis/align.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/base.py b/package/MDAnalysis/analysis/base.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/contacts.py b/package/MDAnalysis/analysis/contacts.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/density.py b/package/MDAnalysis/analysis/density.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/diffusionmap.py b/package/MDAnalysis/analysis/diffusionmap.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/distances.py b/package/MDAnalysis/analysis/distances.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/__init__.py b/package/MDAnalysis/analysis/encore/__init__.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/bootstrap.py b/package/MDAnalysis/analysis/encore/bootstrap.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/clustering/ClusterCollection.py b/package/MDAnalysis/analysis/encore/clustering/ClusterCollection.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/clustering/ClusteringMethod.py b/package/MDAnalysis/analysis/encore/clustering/ClusteringMethod.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/clustering/__init__.py b/package/MDAnalysis/analysis/encore/clustering/__init__.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/clustering/affinityprop.pyx b/package/MDAnalysis/analysis/encore/clustering/affinityprop.pyx
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/clustering/caffinityprop.pxd b/package/MDAnalysis/analysis/encore/clustering/caffinityprop.pxd
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/clustering/cluster.py b/package/MDAnalysis/analysis/encore/clustering/cluster.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/clustering/include/ap.h b/package/MDAnalysis/analysis/encore/clustering/include/ap.h
@@ -1,7 +1,7 @@
 /* -*- tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
   vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 
-  MDAnalysis --- http://www.mdanalysis.org
+  MDAnalysis --- https://www.mdanalysis.org
   Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
   (see the file AUTHORS for the full list of names)
 

diff --git a/package/MDAnalysis/analysis/encore/clustering/src/ap.c b/package/MDAnalysis/analysis/encore/clustering/src/ap.c
@@ -1,7 +1,7 @@
 /* -*- tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
   vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 
-  MDAnalysis --- http://www.mdanalysis.org
+  MDAnalysis --- https://www.mdanalysis.org
   Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
   (see the file AUTHORS for the full list of names)
 

diff --git a/package/MDAnalysis/analysis/encore/confdistmatrix.py b/package/MDAnalysis/analysis/encore/confdistmatrix.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/covariance.py b/package/MDAnalysis/analysis/encore/covariance.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/cutils.pyx b/package/MDAnalysis/analysis/encore/cutils.pyx
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py b/package/MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py b/package/MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/dimensionality_reduction/cstochasticproxembed.pxd b/package/MDAnalysis/analysis/encore/dimensionality_reduction/cstochasticproxembed.pxd
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/dimensionality_reduction/include/spe.h b/package/MDAnalysis/analysis/encore/dimensionality_reduction/include/spe.h
@@ -1,7 +1,7 @@
 /* -*- tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
   vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 
-  MDAnalysis --- http://www.mdanalysis.org
+  MDAnalysis --- https://www.mdanalysis.org
   Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
   (see the file AUTHORS for the full list of names)
 

diff --git a/package/MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py b/package/MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/dimensionality_reduction/src/spe.c b/package/MDAnalysis/analysis/encore/dimensionality_reduction/src/spe.c
@@ -1,7 +1,7 @@
 /* -*- tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
   vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 
-  MDAnalysis --- http://www.mdanalysis.org
+  MDAnalysis --- https://www.mdanalysis.org
   Copyright (c) 2006-2016 The MDAnalysis Development Team and contributors
   (see the file AUTHORS for the full list of names)
 

diff --git a/package/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.pyx b/package/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.pyx
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/similarity.py b/package/MDAnalysis/analysis/encore/similarity.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/encore/utils.py b/package/MDAnalysis/analysis/encore/utils.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/gnm.py b/package/MDAnalysis/analysis/gnm.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #

diff --git a/package/MDAnalysis/analysis/hbonds/__init__.py b/package/MDAnalysis/analysis/hbonds/__init__.py
@@ -1,7 +1,7 @@
 # -*- Mode: python; tab-width: 4; indent-tabs-mode:nil; coding:utf-8 -*-
 # vim: tabstop=4 expandtab shiftwidth=4 softtabstop=4 
 #
-# MDAnalysis --- http://www.mdanalysis.org
+# MDAnalysis --- https://www.mdanalysis.org
 # Copyright (c) 2006-2017 The MDAnalysis Development Team and contributors
 # (see the file AUTHORS for the full list of names)
 #