Add demo pages to website

Author: garrettjstevens

.github/workflows/website.yml

@@ -30,5 +30,5 @@ jobs:
       - name: Upload
         working-directory: packages/website
         run: |
-          aws s3 sync --exclude "demo/*" --delete build/ s3://apollo.jbrowse.org/
+          aws s3 sync --exclude "demo/*" --exclude "paper_2026/*" --delete build/ s3://apollo.jbrowse.org/
           aws cloudfront create-invalidation --distribution-id EL84YTOVCGNJZ --paths '/*'

packages/website/package.json

@@ -6,7 +6,7 @@
     "clear": "docusaurus clear",
     "deploy": "docusaurus deploy",
     "serve": "docusaurus serve",
-    "start": "docusaurus start --port 3131",
+    "start": "docusaurus start --port 3113",
     "swizzle": "docusaurus swizzle",
     "typecheck": "tsc",
     "write-heading-ids": "docusaurus write-heading-ids",

packages/website/src/pages/contact.md

@@ -17,4 +17,4 @@ https://github.com/GMOD/Apollo3/issues/new/choose
 
 ## Email
 
-Coming soon
+team@apollo.jbrowse.org

packages/website/src/pages/demos/index.md

@@ -0,0 +1,3 @@
+# Apollo 3 Demos
+
+- [2026 in-submission Apollo 3 paper](../demos/paper_2026)

packages/website/src/pages/demos/paper_2026/evidence_tracks_screenshot.png

@@ -0,0 +1,26 @@
+# 2026 paper
+
+The demos linked here are based on the use cases presented in our 2026
+in-submission paper on Apollo 3. These demos are set up for Apollo to use local
+editing. This means the Apollo track (labeled "Annotations") will be empty when
+you first open the link. To try out the Apollo track, right-click on a gene in
+the gene track and select "Create Apollo annotation". It will then copy the gene
+to the Apollo track, where it can be edited.
+
+## Multi-genome curation project
+
+![Three-level pairwise synteny](multi_way_synteny_screenshot.png)
+
+[Session link](https://apollo.jbrowse.org/paper_2026/?session=share-O4MEYslLhE&password=czp9i)
+
+## Single genome with deep evidence
+
+![Many evidence tracks](evidence_tracks_screenshot.png)
+
+[Session link](https://apollo.jbrowse.org/paper_2026/?session=share-JyLH0CjvFb&password=VaUG7)
+
+## Single local genome
+
+![Standard and six-frame views](six_frame_screenshot.png)
+
+[Session link](https://apollo.jbrowse.org/paper_2026/?session=share-Wgf5q9Wclz&password=MDqqg)