Update from master

_config.yml

@@ -5,7 +5,7 @@ description: "A Consortium of Services for Research Data Management and More"
 github_project_board: https://github.com/seek4science/seek/projects/12
 
 
-remote_theme: ELIXIR-Belgium/elixir-toolkit-theme@2.3.0
+remote_theme: ELIXIR-Belgium/elixir-toolkit-theme@3.2.0
 
 sass:
   style: compressed

_data/sidebars/main.yml

@@ -53,8 +53,10 @@ subitems:
           url: /fairdom-in-use/plant-is-and-miappe
         - title: NFDI4Health
           url: /fairdom-in-use/nfdi4health
-        - title: Plant Systems-biology Modelling
-          url: /fairdom-in-use/plantsysbiomod
+        - title: SARChI, Mechanistic modelling of health and epidemiology
+          url: /fairdom-in-use/sarchi
+        #- title: Plant Systems-biology Modelling
+        #  url: /fairdom-in-use/plantsysbiomod
         #- title: Systems Biology Modelling
         #  url: /fairdom-in-use/sysbiomod
         - title: deCYPher

_sass/_bootstrap_variables.scss

@@ -28,8 +28,8 @@ $input-color:  $white;
 $input-border-width: 0;
 $input-group-addon-bg: $primary;
 $input-group-addon-color: $white;
-$h1-font-size: 1rem * 2.8 !default;
-$h2-font-size: 1rem * 1.6 !default;
-$h3-font-size: 1rem * 1.2 !default;
-$h4-font-size: 1rem * 1.1 !default;
-$h5-font-size: 1rem !default;
+$h1-font-size: 1rem * 3.1;
+$h2-font-size: 1rem * 1.7;
+$h3-font-size: 1rem * 1.2;
+$h4-font-size: 1rem * 1.1;
+$h5-font-size: 1rem;

_sass/_custom_classes.scss

@@ -120,6 +120,17 @@ iframe {
 
 .navigation-tiles .card .card-header {
     background-color: $primary;
+    a h3 {
+        color: white;
+        text-decoration: none;
+    }
+    a:hover h3{
+        text-decoration: underline;
+    }
+}
+
+.card-in-use:hover {
+    color: white;
 }
 
 main .form-control, main .input-group-text, main .form-control:focus {

_sass/_custom_variables.scss

@@ -30,17 +30,15 @@ $toc-bg: $light;
 
 /*-----Section navigation tiles-----*/
 $nav-card-bg: $light;
-$nav-card-header-bg: $dark;
-$nav-card-header-color: $white;
-$nav-card-badge-color: $body-color;
-$nav-card-badge-bg: $white;
-$nav-card-badge-color-hover: $white;
-$nav-card-badge-bg-hover: $primary;
+$nav-card-color: $dark;
+$nav-card-bg-hover: $primary;
+$nav-card-color-hover: $white;
 
 /*-----More information tiles-----*/
 $info-card-bg: $light;
-$info-card-header-bg: $dark;
-$info-card-header-color: $white;
+$info-card-color: $dark;
+$info-card-bg-hover: $primary;
+$info-card-color-hover: $white;
 
 /*-----Contributors-cards-----*/
 $contr-card-bg: $light;

pages/about/partners.md

@@ -20,8 +20,8 @@ toc: false
 
 Historically, FAIRDOM was founded as a joint action of ERANet ERASysAPP and European Research Infrastructure ISBE to establish a data and model management service facility for Systems Biology. It comprised of five partner institutions from four countries:
 
-* The University of Manchester, UK: Prof. Carole Goble; Prof. Jacky Snoep
-* Heidelberg Institute for Theoretical Studies (HITS), Germany: Dr. Wolfgang Müller
-* The University of Zürich, Switzerland: Dr. Peter Kunszt
-* The Eidgenössische Technische Hochschule (ETH) Zürich, Switzerland: Dr. Bernd Rinn
-* The University of Leiden, Netherlands: Dr. Katy Wolstencroft
+* [The University of Manchester](https://www.manchester.ac.uk/), UK: Prof. Carole Goble; Prof. Jacky Snoep
+* [Heidelberg Institute for Theoretical Studies (HITS)](https://www.h-its.org/), Germany: Dr. Wolfgang Müller
+* [The University of Zürich](https://www.uzh.ch/en.html), Switzerland: Dr. Peter Kunszt
+* [The Eidgenössische Technische Hochschule (ETH) Zürich](https://ethz.ch/en.html), Switzerland: Dr. Bernd Rinn
+* [The University of Leiden](https://www.universiteitleiden.nl/en), Netherlands: Dr. Katy Wolstencroft

pages/fairdom_in_use/fairdom_projects/plantsysbiomod.md

@@ -1,7 +1,7 @@
 ---
 title: Plant Systems-biology Modelling
 description: 
-type: project
+#type: project #hide this page for now
 ---
 
 ## Introduction

pages/fairdom_in_use/fairdom_projects/sarchi.md

@@ -0,0 +1,31 @@
+---
+title: SARChI, Mechanistic modelling of health and epidemiology
+description: A computational systems biology programme from the South African Research Chair Initiative (SARChI).
+type: project
+toc: false
+---
+
+{% include image.html file="fairdom_in_use/nrf-za-logo.png" alt="National Research Foundation South Africa Logo" max-width='12em' %}
+
+This computational systems biology programme **"Mechanistic modelling of health and epidemiology"** is a DST/NRF (Department of Science and Technology/National Research Foundation) funded SARChI ([South African Research Chair Initiative](https://www.nrf.ac.za/core-mandate-business-divisions/risa-directorates/research-chairs-and-centres-of-excellence-rcce/south-african-research-chairs-initiative/)) project. The research chair holder Jacky Snoep, and co-Pi Dawie van Niekerk, are hosted at the Biochemistry department at Stellenbosch University and at SACEMA (South African Centre for Epidemiological Modelling and Analysis). 
+
+The SARChI project uses the [FAIRDOMHub](/fairdom-in-use/fairdomhub) for data and model management: [SARCHI: Mechanistic modelling of health and epidemiology](https://fairdomhub.org/programmes/3). It currently has 5 projects: Whole body modelling of glucose metabolism in malaria patients, Glucose metabolism in cancer cell lines, Steroid biosynthesis, Yeast glycolytic oscillations, Computational pathway design for biotechnological applications.
+
+## Example project 
+
+> ### Whole body modelling of glucose metabolism in malaria patients 
+>
+> The aim of this project is to quantify metabolic contributions to the dysregulation of glucose homeostasis in malaria patients. For these patients, hypoglycaemia and lactic acidosis are key diagnostics for poor chances of survival. The approach is to start with detailed bottom up models for the malaria parasite, Plasmodium falciparum, and then merge these with more coarse grained models at the whole body level.
+
+## Features 
+Data and scripts used for model construction, validation and analyses are [provided in the project ISA structure on FAIRDOMHub](https://fairdomhub.org/projects/17/overview), together with model SBML files that can be directly simulated in JWS Online from within FAIRDOMHub. Where applicable, SEDML links are also provided to reproduce published simulations in real-time on JWS Online. These simulations also retrieve data directly from FAIRDOMHub to show simulation results with data on the reproduced figures.
+
+## More information
+Current project assets include 22 Data Files, 34 Models, 17 SOPs and 3 Publications. For more information, please see the [SARCHI: Mechanistic modelling of health and epidemiology](https://fairdomhub.org/programmes/3) page on FAIRDOMHub.
+
+{% comment %}
+## Figures
+
+{% include image.html file="fairdom_in_use/sarchi-screen.png" alt="SARChI programme in FAIRDOMHub" click=true class='screenshot' caption="" %}
+
+{% endcomment %}

pages/fairdom_in_use/fdom_in_use.md

@@ -24,14 +24,14 @@ Each Hub positions itself in a different place in the project asset management p
 <div class="row navigation-tiles">
     <div class="col" >
         <div class="card card-tall">
-                <a class="stretched-link" aria-label="Go to the FAIRDOM-SEEK Hubs page" href="/fairdom-in-use/fairdom_hubs_search">
+                <a class="stretched-link card-in-use" aria-label="Go to the FAIRDOM-SEEK Hubs page" href="/fairdom-in-use/fairdom_hubs_search">
                     <h3 class="card-title m-0"><i class="fa-solid fa-folder-tree"></i> FAIRDOM-SEEK Hubs</h3>
                 </a>
         </div>
     </div>
     <div class="col" >
         <div class="card card-tall">
-                <a class="stretched-link" aria-label="Go to the FAIRDOM-SEEK Projects page" href="/fairdom-in-use/fairdom_projects_search">
+                <a class="stretched-link card-in-use" aria-label="Go to the FAIRDOM-SEEK Projects page" href="/fairdom-in-use/fairdom_projects_search">
                     <h3 class="card-title m-0"><i class="fa-solid fa-folder-tree"></i> FAIRDOM-SEEK Projects</h3>
                 </a>
         </div>