From efab53944010d879b7e5d766d7f1cf581addd818 Mon Sep 17 00:00:00 2001 From: James Krieger Date: Thu, 22 Aug 2024 12:05:47 +0200 Subject: [PATCH] update website except build website docs --- CONTRIBUTING.md | 2 +- PKG-INFO | 14 +++++++------- docs/apps/prody/index.rst | 2 +- docs/conf.py | 6 +++--- docs/index.rst | 2 +- prody/ensemble/functions.py | 2 +- 6 files changed, 14 insertions(+), 14 deletions(-) diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md index dd33301d1..5da7b11be 100644 --- a/CONTRIBUTING.md +++ b/CONTRIBUTING.md @@ -1,4 +1,4 @@ -This is a first draft, which is based on the ProDy website page http://prody.csb.pitt.edu/manual/devel/develop.html. Please see that page for updates. +This is a first draft, which is based on the ProDy website page http://www.bahargroup.org/prody/manual/devel/develop.html. Please see that page for updates. Install Git and a GUI diff --git a/PKG-INFO b/PKG-INFO index 047dc0d48..bf2690a89 100644 --- a/PKG-INFO +++ b/PKG-INFO @@ -32,23 +32,23 @@ Description: .. image:: https://secure.travis-ci.org/prody/ProDy.png?branch=mast You can run ProDy on all major platforms. For download and installation instructions see: - * http://prody.csb.pitt.edu/downloads + * http://www.bahargroup.org/prody/downloads DOCUMENTATION ------------- - * Homepage: http://prody.csb.pitt.edu/ + * Homepage: http://www.bahargroup.org/prody/ - * Tutorials: http://prody.csb.pitt.edu/tutorials + * Tutorials: http://www.bahargroup.org/prody/tutorials - * Reference: http://prody.csb.pitt.edu/manual + * Reference: http://www.bahargroup.org/prody/manual - * Applications: http://prody.csb.pitt.edu/manual/apps + * Applications: http://www.bahargroup.org/prody/manual/apps - * NMWiz GUI: http://prody.csb.pitt.edu/nmwiz + * NMWiz GUI: http://www.bahargroup.org/prody/nmwiz - * Changes: http://prody.csb.pitt.edu/manual/release + * Changes: http://www.bahargroup.org/prody/manual/release SOURCE CODE diff --git a/docs/apps/prody/index.rst b/docs/apps/prody/index.rst index 477f661b1..32958c34b 100644 --- a/docs/apps/prody/index.rst +++ b/docs/apps/prody/index.rst @@ -40,4 +40,4 @@ the output files are prefixed with :file:`p38_anm`:: The output file :file:`p38_anm.nmd` can be visualized using `NMWiz`_. -.. _NMWiz: http://prody.csb.pitt.edu/nmwiz/ +.. _NMWiz: http://www.bahargroup.org/prody/nmwiz/ diff --git a/docs/conf.py b/docs/conf.py index b5880a85c..4588b0003 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -158,13 +158,13 @@ 'numpy': ('http://docs.scipy.org/doc/numpy/', None), 'scipy': ('http://docs.scipy.org/doc/scipy/reference/', None), 'matplotlib': ('http://matplotlib.sourceforge.net/', None), - 'prodywebsite': ('http://prody.csb.pitt.edu/', None), + 'prodywebsite': ('http://www.bahargroup.org/prody/', None), } rst_epilog = u""" -.. _ProDy: http://prody.csb.pitt.edu -.. _Tutorials: http://prody.csb.pitt.edu/tutorials +.. _ProDy: http://www.bahargroup.org/prody +.. _Tutorials: http://www.bahargroup.org/prody/tutorials .. _NMWiz: http://csb.pitt.edu/NMWiz .. _VMD: http://www.ks.uiuc.edu/Research/vmd .. _PDB: http://www.pdb.org diff --git a/docs/index.rst b/docs/index.rst index 4aad2ed6d..aa56b17e4 100644 --- a/docs/index.rst +++ b/docs/index.rst @@ -11,7 +11,7 @@ ProDy Manual .. only:: rtd and html This is a partial copy of ProDy documentation. Please visit - `ProDy Homepage `_ for complete + `ProDy Homepage `_ for complete documentation with tutorials. diff --git a/prody/ensemble/functions.py b/prody/ensemble/functions.py index c09cd844e..be7bd1688 100644 --- a/prody/ensemble/functions.py +++ b/prody/ensemble/functions.py @@ -411,7 +411,7 @@ def buildPDBEnsemble(atomics, ref=None, title='Unknown', labels=None, atommaps=N if 'mapping_func' in kwargs: raise DeprecationWarning('mapping_func is deprecated. Please see release notes for ' - 'more details: http://prody.csb.pitt.edu/manual/release/v1.11_series.html') + 'more details: http://www.bahargroup.org/prody/manual/release/v1.11_series.html') start = time.time() if not isListLike(atomics):