changes in gallery and video rsts

.github/workflows/documentation.yml

@@ -13,7 +13,7 @@ jobs:
       - uses: actions/setup-python@v5
       - name: Install dependencies
         run: |
-          pip install sphinx sphinx_rtd_theme myst_parser
+          pip install sphinx sphinx_rtd_theme myst_parser sphinx_panels
       - name: Sphinx build
         run: |
           sphinx-build doc _build

doc/conf.py

@@ -31,7 +31,7 @@
 # extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
 # ones.
 extensions = [
-    'sphinx.ext.autosectionlabel', 'sphinx_rtd_theme'
+    'sphinx.ext.autosectionlabel', 'sphinx_rtd_theme', 'sphinx_panels',
 ]
 
 # Add any paths that contain templates here, relative to this directory.

doc/gallery.rst

@@ -7,26 +7,24 @@ EFP gallery
 Gallery
 =======
 
-This gallery highlights the use of EFP to bridge the gap between chemistry, biology, and physics,
-particularly in solving real-world challenges in drug design and photosynthesis. EFP plays a crucial
-role in understanding and optimizing these complex processes by providing detailed insights into
+This gallery highlights the use of EFP to bridge the gap between chemistry, biology, and physics, 
+particularly in solving real-world challenges in drug design and photosynthesis. EFP plays a crucial 
+role in understanding and optimizing these complex processes by providing detailed insights into 
 molecular interactions.
 
-.. _Drug-design: https://www.drug_design.com
 
-Drug-design_
-^^^^^^^^^^^^
-.. _Drug-design: https://www.drug_design.com
+:ref:`Drug-design`
+^^^^^^^^^^^^^^^^^^
+
 .. image:: ../images/drug_design.png
-   :target: https://www.drug_design.com
    :alt: Drug design
    :width: 300
 
-.. _Photosynthesis: file:///C:/Users/richm/libefp2.github.io/html/gallery_ref.html
 
-Photosynthesis_
-^^^^^^^^^^^^^^^
+
+:ref:`Photosynthesis`
+^^^^^^^^^^^^^^^^^^^^^
 .. image:: ../images/photo.png
-   :target: file:///C:/Users/richm/libefp2.github.io/html/gallery_ref.html
    :alt: Photosynthesis
    :width: 300
+

doc/tutorials.rst

@@ -11,16 +11,35 @@ This section deals with running an EFP job on a non-covalently bonded system.
 
 The steps to running an EFP calculation on a system are:
 
-* Running MAKEFP job in software package GAMESS [1_]
-* Obtaining EFP parameters from MAKEFP output [1_]
-* Preparing LIBEFP input file [2_]
-* Running EFP calculation in LIBEFP [2_] 
 
+.. dropdown:: Running MAKEFP job in software package GAMESS
 
+    This is explicitly shown in :ref:`parameters`
 
-.. _1: file:///C:/Users/richm/libefp2.github.io/html/parameters.html
-.. _2: file:///C:/Users/richm/libefp2.github.io/html/libefp_ref.html
+.. dropdown:: Obtaining EFP parameters from MAKEFP output 
 
-Videos_
-^^^^^^^
-.. _Videos: file:///C:/Users/richm/libefp2.github.io/html/video_ref.html
+    Refer to :ref:`parameters`
+
+.. dropdown:: Preparing LIBEFP input file 
+
+    Refer to :ref:`running efp calculations`
+
+.. dropdown:: Running EFP calculation in LIBEFP
+
+    Refer to :ref:`running efp calculations`
+
+
+
+
+Videos
+~~~~~~
+
+.. dropdown:: See links to videos
+
+   `How to run MAKEFP job <https://youtu.be/orHN362tLjI?si=yGsAYYCeCTqhlyQt>`_
+
+   `How to submit MAKEFP input in GAMESS <https://youtu.be/auM76y2tdzw?si=dBOa5sSojKmn4cc7>`_
+
+   `Analyzing MAKEFP output <https://youtu.be/R2r_IrV6NbY?si=tgePy5k_UIpmVMpl>`_
+
+   `Obtaining EFP parameters and running EFP calculations in LIBEFP <https://youtu.be/oww9uGJmKX4?si=Ih-lwMZTIWO3cK4z>`_