From 529e806ffe75b85bbcd5788d4284e21792b49772 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Mon, 13 Apr 2026 10:01:43 -0500
Subject: Improve UI text and reorganise the UI.

---
 uploader/templates/genotypes/create-dataset.html |   6 +-
 uploader/templates/genotypes/list-genotypes.html | 128 ++++++++++++-----------
 2 files changed, 71 insertions(+), 63 deletions(-)

diff --git a/uploader/templates/genotypes/create-dataset.html b/uploader/templates/genotypes/create-dataset.html
index 5a6d3d2..ff174fb 100644
--- a/uploader/templates/genotypes/create-dataset.html
+++ b/uploader/templates/genotypes/create-dataset.html
@@ -41,9 +41,9 @@
       <small class="form-text text-muted">
         <p>This is a short representative, but constrained name for the genotype
           dataset.<br />
-          The field will only accept letters ('A-Za-z'), numbers (0-9), hyphens
-          and underscores. Any other character will cause the name to be
-          rejected.</p></small>
+          It is used internally by the Genenetwork system. Do not change this
+          value.</p>
+      </small>
     </div>
 
     <div class="form-group">
diff --git a/uploader/templates/genotypes/list-genotypes.html b/uploader/templates/genotypes/list-genotypes.html
index be297a4..5b970ff 100644
--- a/uploader/templates/genotypes/list-genotypes.html
+++ b/uploader/templates/genotypes/list-genotypes.html
@@ -54,81 +54,72 @@
 </div>
 
 <div class="row">
-  <h2 class="subheading">Genetic Markers</h2>
+  <h2>Genotype Dataset</h2>
 
-  <table id="tbl-genetic-markers" class="table compact stripe cell-border"
-         data-genetic-markers='{{genetic_markers | tojson}}'>
+  {%if dataset is not none%}
+
+  <table class="table">
     <thead>
       <tr>
-        <th title="">Index</th>
-        <th title="">Marker Name</th>
-        <th title="Chromosome">Chr</th>
-        <th title="Physical location of the marker in megabasepairs">
-          Location (Mb)</th>
-        <th title="">Source</th>
-        <th title="">Source2</th>
+        <th>Name</th>
+        <th>Full Name</th>
+      </tr>
     </thead>
 
     <tbody>
-      {%for marker in markers%}
       <tr>
-        <td></td>
-        <td></td>
-        <td></td>
-        <td></td>
-        <td></td>
-        <td></td>
+        <td>{{dataset.Name}}</td>
+        <td><a href="{{url_for('species.populations.genotypes.view_dataset',
+                     species_id=species.SpeciesId,
+                     population_id=population.Id,
+                     dataset_id=dataset.Id)}}"
+               title="View details regarding and manage dataset '{{dataset.FullName}}'">
+            {{dataset.FullName}}</a></td>
       </tr>
-      {%endfor%}
     </tbody>
   </table>
-</div>
-
-<div class="row text-danger">
-  <h3>Some Important Concepts to Consider/Remember</h3>
-  <ul>
-    <li>Reference vs. Non-reference alleles</li>
-    <li>In <em>GenoCode</em> table, items are ordered by <strong>InbredSet</strong></li>
-  </ul>
-  <h3>Possible references</h3>
-  <ul>
-    <li>https://mr-dictionary.mrcieu.ac.uk/term/genotype/</li>
-    <li>https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7363099/</li>
-  </ul>
-</div>
-
-<div class="row">
-  <h2>Genotype Datasets</h2>
 
-  <p>The genotype data is organised under various genotype datasets. You can
-    click on the link for the relevant dataset to view a little more information
-    about it.</p>
+  <div class="row">
+    <h3 class="subsubheading">Genetic Markers</h3>
 
-  {%if dataset is not none%}
-    <table class="table">
+    <table id="tbl-genetic-markers" class="table compact stripe cell-border"
+           data-genetic-markers='{{genetic_markers | tojson}}'>
       <thead>
         <tr>
-          <th>Name</th>
-          <th>Full Name</th>
-        </tr>
+          <th title="">Index</th>
+          <th title="">Marker Name</th>
+          <th title="Chromosome">Chr</th>
+          <th title="Physical location of the marker in megabasepairs">
+            Location (Mb)</th>
+          <th title="">Source</th>
+          <th title="">Source2</th>
       </thead>
 
       <tbody>
+        {%for marker in markers%}
         <tr>
-          <td>{{dataset.Name}}</td>
-          <td><a href="{{url_for('species.populations.genotypes.view_dataset',
-                       species_id=species.SpeciesId,
-                       population_id=population.Id,
-                       dataset_id=dataset.Id)}}"
-                 title="View details regarding and manage dataset '{{dataset.FullName}}'">
-              {{dataset.FullName}}</a></td>
+          <td></td>
+          <td></td>
+          <td></td>
+          <td></td>
+          <td></td>
+          <td></td>
         </tr>
+        {%endfor%}
       </tbody>
     </table>
+  </div>
+
   {%else%}
+
+  <p>
+    Your genotype data will need to be under a dataset. Unfortunately there is
+    currently no dataset defined for this population.
+  </p>
+
   <p class="text-warning">
     <span class="glyphicon glyphicon-exclamation-sign"></span>
-    There is no genotype dataset defined for this population.
+    Click the button below to define the genotype dataset for this population.
   </p>
   <p>
     <a href="{{url_for('species.populations.genotypes.create_dataset',
@@ -139,16 +130,33 @@
       create new genotype dataset</a></p>
   {%endif%}
 </div>
-<div class="row text-warning">
-  <p>
-    <span class="glyphicon glyphicon-exclamation-sign"></span>
-    <strong>NOTE</strong>: Currently the GN2 (and related) system(s) expect a
-    single genotype dataset. If there is more than one, the system apparently
-    fails in unpredictable ways.
-  </p>
-  <p>Fix this to allow multiple datasets, each with a different assembly from
-    all the rest.</p>
+
+<div class="row">
+  <h2>Notes</h2>
+  <div class="row text-danger">
+    <h3>Genetic Markers: Some Important Concepts to Consider/Remember</h3>
+    <ul>
+      <li>Reference vs. Non-reference alleles</li>
+      <li>In <em>GenoCode</em> table, items are ordered by <strong>InbredSet</strong></li>
+    </ul>
+    <h3>Possible references</h3>
+    <ul>
+      <li>https://mr-dictionary.mrcieu.ac.uk/term/genotype/</li>
+      <li>https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7363099/</li>
+    </ul>
+  </div>
+
+  <div class="row text-warning">
+    <h3>Genotype Dataset</h3>
+    <p>
+      <span class="glyphicon glyphicon-exclamation-sign"></span>
+      <strong>NOTE</strong>: Currently the GN2 (and related) system(s) expect a
+      single genotype dataset per population. If there is more than one, the
+      system apparently fails in unpredictable ways.
+    </p>
+  </div>
 </div>
+
 {%endblock%}
 
 
-- 
cgit 1.4.1