update activity tiles

_data/events.yml

@@ -31,36 +31,36 @@
 - name: Protein design seminar series
   startDate: 2025-07-15
   endDate: 2025-07-15
-  description: "Using AI protein design to design binding proteins to challenging bacterial transporters."
+  description: "**Topic:** Using AI protein design to design binding proteins to challenging bacterial transporters."
   url: https://www.eventbrite.com.au/e/webinar-leveraging-deep-learning-to-design-custom-protein-binding-proteins-tickets-1414347163439?aff=oddtdtcreator
   location: Online
 - name: Protein design seminar series
   startDate: 2025-08-12
   endDate: 2025-08-12
-  description: "Icrs: AI-Designed Anti-CRISPRs as Programmable CRISPR Inhibitors."
+  description: "**Topic:** Icrs: AI-Designed Anti-CRISPRs as Programmable CRISPR Inhibitors."
   url: https://www.eventbrite.com.au/e/webinar-leveraging-deep-learning-to-design-custom-protein-binding-proteins-tickets-1414347163439?aff=oddtdtcreator
   location: Online
 - name: Australian Structural Biology Computing community meeting
   startDate: 2025-08-27
   endDate: 2025-08-27
-  description: "Visit the rolling agenda for details on how to join the next meeting."
+  description: "Click to visit the rolling agenda and see details on how to join the next meeting."
   url: https://docs.google.com/document/d/1miRyOOOW7HeDsCvzJwVEOhaAzPBve8od9WUvsAsFfcw/edit#heading=h.owmugrvs22hi
   location: Online
 - name: Protein design seminar series
   startDate: 2025-09-16
   endDate: 2025-09-16
-  description: "Using in silico design methods to create de novo proteins that selectively modulate apoptosis."
+  description: "**Topic:** Using in silico design methods to create de novo proteins that selectively modulate apoptosis."
   url: https://www.eventbrite.com.au/e/webinar-leveraging-deep-learning-to-design-custom-protein-binding-proteins-tickets-1414347163439?aff=oddtdtcreator
   location: Online
 - name: Protein design seminar series
   startDate: 2025-10-07
   endDate: 2025-10-07
-  description: "Introducing ProteinDJ: A modular and open-source framework for protein design workflows."
+  description: "**Topic:** Introducing ProteinDJ: A modular and open-source framework for protein design workflows."
   url: https://www.eventbrite.com.au/e/webinar-leveraging-deep-learning-to-design-custom-protein-binding-proteins-tickets-1414347163439?aff=oddtdtcreator
   location: Online
 - name: Protein design seminar series
   startDate: 2025-11-11
   endDate: 2025-11-11
-  description: TBD
+  description: "**Topic:** TBD"
   url: https://www.eventbrite.com.au/e/webinar-leveraging-deep-learning-to-design-custom-protein-binding-proteins-tickets-1414347163439?aff=oddtdtcreator
   location: Online

_includes/resource-table-category.html

@@ -10,7 +10,7 @@
     <table class="tooltable table display">
         <thead>
             <tr class="text-nowrap">
-                <th>How-to Guide or resource {%- if include.tag -%}
+                <th>Resource {%- if include.tag -%}
                     <a data-bs-toggle="tooltip" data-bs-original-title="This is a curated list which means that not all tools or resources that exist for this topic are listed here. This is mainly because we do not intend to be a registry.">
                         <i class="fa-solid fa-info-circle"></i>
                     </a>{%- endif %}

_includes/section-navigation-tiles_mod.html

@@ -0,0 +1,89 @@
+{% comment %}
+Gemini 2.5 Pro used to assist with the initial creation of this code, based on existing code in events.html (2025-07-07)
+Prompt 1: "Can this jekyll html include be modified to create tiles for individual pages instead of tiles for events?"
+Prompt 2: "Can you also add a small category badge to the tile?"
+{% endcomment %}
+
+{%- assign pages_to_add_as_tiles = site.pages -%}
+<div class="page-tiles">
+  <div class="page-tiles-container">
+    <div class="page-tiles-list">
+      {%- for page in pages_to_add_as_tiles -%}
+      {%- if page.type == include.type %}
+        <a href="{{ page.url | relative_url }}" class="page-tile-link">
+          <div class="page-tile-item">
+            <div class="page-tile-content">
+              <h3 class="page-tile-title">{{ page.title }}</h3>
+              {% if page.description %}
+              <p class="page-tile-description">{{ page.description }}</p>
+              {% endif %}
+              {% if page.roadmap %}
+              <p class="page-tile-roadmap">{{ page.roadmap }}</p>
+              {% endif %}
+            </div>
+          </div>
+        </a>
+      {%- endif %}
+      {%- endfor -%}
+    </div>
+  </div>
+</div>
+
+<style>
+
+  .page-tiles-list {
+          display: grid;
+          grid-template-columns: repeat(auto-fit, minmax(300px, 1fr));
+          gap: 20px;
+  }
+
+  .page-tile-link {
+          text-decoration: none;
+          color: inherit;
+          display: flex;
+  }
+
+  .page-tile-item {
+           border: 1px solid #e0e0e0;
+           border-radius: 12px;
+           padding: 25px;
+           transition: all 0.3s ease;
+           background: #012152;
+           width: 100%;
+           display: flex;
+           flex-direction: column;
+           justify-content: space-between;
+  }
+
+  .page-tile-item:hover {
+           transform: translateY(-4px);
+           box-shadow: 0 8px 25px rgba(0,0,0,0.1);
+           border-color: #012152;
+  }
+
+  .page-tile-roadmap {
+           display: inline-block;
+           font-size: 0.7rem;
+           font-weight: 700;
+           padding: 4px 10px;
+           background-color: #eef2f9;
+           color: #012152;
+           border-radius: 20px;
+           margin-bottom: 12px;
+  }
+
+  .page-tile-title {
+           color: #ffffff;
+           font-size: 1.3rem;
+           font-weight: 600;
+           margin-bottom: 8px;
+  }
+
+  .page-tile-description {
+           color: #ffffff;
+           font-size: 0.9rem;
+           line-height: 1.5;
+           flex-grow: 1;
+  }
+
+</style>

index.md

@@ -16,7 +16,7 @@ This website is a virtual meeting place and hub for all users of **computing for
 {% include tiles-simple.html target = "tiles" col = "1" %}
 
 
-## Events
+## Upcoming Events
 
 {% include events.html event_type="upcoming_event" limit=4 %}
 

pages/activities.md

@@ -7,15 +7,16 @@ toc: false
 
 
 ## In progress
-{% include section-navigation-tiles-simple.html col = "2" type="activity_in_progress" except="binder_access.md" %}
+
+{% include section-navigation-tiles_mod.html type ="activity_in_progress" %}
 
 
 ## Future
 
-{% include section-navigation-tiles-simple.html col = "2" type="activity_future"%}
+{% include section-navigation-tiles_mod.html type="activity_future"%}
 
 
 ## Completed
 
-{% include section-navigation-tiles-simple.html col = "2" type="activity_completed"%}
+{% include section-navigation-tiles_mod.html type ="activity_completed" %}
 

pages/activities/batch_structure_prediction.md

@@ -1,6 +1,8 @@
 ---
 title: Batch Structure Prediction Workflows
+description: Developing optimized batch workflows for structure prediction.
 type: activity_in_progress
+roadmap: A shared platform, or platforms (Roadmap D3A)
 contributors: [Ziad Al-Bkhetan, Mitchell O'Brien, Joshua Storm Caley, Keiran Rowell, Cameron Hyde, Thomas Litfin]
 toc: false
 ---

pages/activities/bindcraft_access.md

@@ -1,6 +1,8 @@
 ---
 title: Community Access to BindCraft
+description: Increasing community access to an end-to-end solution for protein binder design.
 type: activity_in_progress
+roadmap: A shared platform, or platforms (Roadmap D3Ac)
 contributors: [Ziad Al-Bkhetan, Thomas Litfin]
 toc: false
 ---
@@ -10,7 +12,7 @@ toc: false
 
 - [BindCraft](https://github.com/martinpacesa/BindCraft) is an end-to-end solution for protein binder design.
 - BindCraft was widely used by participants in a recent blind evaluation (**[Adaptyv Bio](https://www.adaptyvbio.com/blog/po104)**) of protein binder design tools. 
-- Several independent groups generated de novo designed binders with competitive affinity to the natural ligand using the BindCraft tool.
+- Several independent groups generated *de novo* designed binders with competitive affinity to the natural ligand using the BindCraft tool.
 - BindCraft tool is available within a NextFlow **[workflow](https://github.com/Australian-Structural-Biology-Computing/bindflow)** to support portable deployment.
 
 {% include callout.html type="warning" content="Native BindCraft tool requires PyRosetta as a filter with non-commercial license." %}

pages/activities/infrastructure_roadmap.md

@@ -1,6 +1,8 @@
 ---
 title: Infrastructure Roadmap
+description: Draft and publish an Australian infrastructure roadmap for addressing computational challenges facing structural biology.
 type: activity_in_progress
+roadmap: Community co-authored document
 toc: false
 ---
 

pages/activities/nci_data_collections.md

@@ -1,6 +1,8 @@
 ---
 title: NCI Data Collection
+description: Create a stable release of up-to-date reference data (with DOI) at the NCI.
 type: activity_in_progress
+roadmap: A shared platform, or platforms (Roadmap D3F)
 contributors: [Matthew Downton, Kisaru Liyanage, Wenjing Xue, Joshua Storm Caley, Thomas Litfin]
 toc: false
 ---

pages/activities/nci_ood_proteinfold.md

@@ -1,6 +1,8 @@
 ---
 title: OpenOnDemand GUI ProteinFold app
+description: Create and adapt a pilot ProteinFold app for OpenOnDemand.
 type: activity_in_progress
+roadmap: A shared platform, or platforms (Roadmap D3Ac)
 contributors: [Matthew Downton, Kisaru Liyanage, Wenjing Xue, Joshua Storm Caley, Keiran Rowell, Thomas Litfin]
 toc: false
 ---

pages/activities/nfcore_proteinfold.md

@@ -1,6 +1,8 @@
 ---
 title: nf-core ProteinFold v2.0 Release
+description: Contribute towards, and locally deploy, v2.0 of nf-core ProteinFold workflow.
 type: activity_in_progress
+roadmap: A shared platform, or platforms (Roadmap D3A)
 contributors: [Ziad Al-Bkhetan, Mitchell O'Brien, Joshua Storm Caley, Keiran Rowell, Thomas Litfin]
 toc: false
 ---

pages/activities/nfcore_proteinfold_pawsey.md

@@ -1,6 +1,8 @@
 ---
 title: nf-core ProteinFold at Pawsey
+description: Deploy nf-core ProteinFold workflow at Pawsey Supercomputing Research Centre.
 type: activity_in_progress
+roadmap: A shared platform, or platforms (Roadmap D3Ab)
 contributors: [Sarah Beecroft, Joshua Storm Caley]
 toc: false
 ---

pages/activities/protein_design_seminars.md

@@ -1,6 +1,8 @@
 ---
 title: Protein Design Seminar Series (2025)
+description: Community members will host a monthly seminar series to share knowledge on protein design strategies.
 type: activity_in_progress
+roadmap: A computational structural biology training program (Roadmap D2)
 contributors: [Rhys Grinter, Gavin Knott, Cyntia Taveneau, Josh Hardy, Kate Michie, Johan Gustafsson, Melissa Burke]
 toc: false
 ---

pages/events.md

@@ -2,6 +2,7 @@
 title: Events
 description: Announcements for relevant courses, meetings, and information about structural biology.
 page_id: events
+toc: false
 ---
 
 

pages/news.md

@@ -1,6 +1,7 @@
 ---
 title: News
 page_id: news
+toc: false
 ---
 
 {% include news.html truncate=true %}

pages/resources/external_communities.md

@@ -2,6 +2,7 @@
 title: External Communities
 page_id: external_resources_communities
 datatable: true
+toc: false
 #type: resources
 ---
 

pages/resources/external_databases.md

@@ -2,6 +2,7 @@
 title: External Databases
 page_id: external_resources_dbs
 datatable: true
+toc: false
 #type: resources
 ---
 

pages/resources/external_guides.md

@@ -2,6 +2,7 @@
 title: External Guides
 page_id: external_resources_guides
 datatable: true
+toc: false
 #type: resources
 ---
 

pages/resources/external_servers.md

@@ -2,6 +2,7 @@
 title: External Resources & Servers
 page_id: external_resources_servers
 datatable: true
+toc: false
 #type: resources
 ---
 

pages/resources/external_videos.md

@@ -2,6 +2,7 @@
 title: External Videos
 page_id: external_resources_videos
 datatable: true
+toc: false
 #type: resources
 ---
 

pages/resources/external_viz.md

@@ -2,6 +2,7 @@
 title: External Visualization
 page_id: external_resources_viz
 datatable: true
+toc: false
 #type: resources
 ---