3 files changed, 192 insertions, 0 deletions
diff --git a/uploader/templates/genotypes/create-dataset.html b/uploader/templates/genotypes/create-dataset.html
new file mode 100644
index 0000000..10331c1
--- /dev/null
+++ b/uploader/templates/genotypes/create-dataset.html
@@ -0,0 +1,82 @@
+{%extends "genotypes/base.html"%}
+{%from "flash_messages.html" import flash_all_messages%}
+{%from "populations/macro-display-population-card.html" import display_population_card%}
+
+{%block title%}Genotypes — Create Dataset{%endblock%}
+
+{%block pagetitle%}Genotypes — Create Dataset{%endblock%}
+
+{%block lvl4_breadcrumbs%}
+<li {%if activelink=="create-dataset"%}
+    class="breadcrumb-item active"
+    {%else%}
+    class="breadcrumb-item"
+    {%endif%}>
+  <a href="{{url_for('species.populations.genotypes.create_dataset',
+           species_id=species.SpeciesId,
+           population_id=population.Id)}}">Create Dataset</a>
+</li>
+{%endblock%}
+
+{%block contents%}
+{{flash_all_messages()}}
+
+<div class="row">
+  <form id="frm-geno-create-dataset"
+        method="POST"
+        action="{{url_for('species.populations.genotypes.create_dataset',
+                species_id=species.SpeciesId,
+                population_id=population.Id)}}">
+    <legend>Create a new Genotype Dataset</legend>
+
+    <div class="form-group">
+      <label for="txt-geno-dataset-name" class="form-label">Name</label>
+      <input type="text"
+             id="txt-geno-dataset-name"
+             name="geno-dataset-name"
+             required="required"
+             class="form-control" />
+      <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>
+    </div>
+
+    <div class="form-group">
+      <label for="txt-geno-dataset-fullname" class="form-label">Full Name</label>
+      <input type="text"
+             id="txt-geno-dataset-fullname"
+             name="geno-dataset-fullname"
+             required="required"
+             class="form-control" />
+      <small class="form-text text-muted">
+        <p>This is a longer, more descriptive name for your dataset.</p></small>
+    </div>
+
+    <div class="form-group">
+      <label for="txt-geno-dataset-shortname"
+             class="form-label">Short Name</label>
+      <input type="text"
+             id="txt-geno-dataset-shortname"
+             name="geno-dataset-shortname"
+             class="form-control" />
+      <small class="form-text text-muted">
+        <p>A short name for your dataset. If you leave this field blank, the
+          short name will be set to the same value as the
+          "<strong>Name</strong>" field above.</p></small>
+    </div>
+
+    <div class="form-group">
+      <input type="submit"
+             class="btn btn-primary"
+             value="create dataset"  />
+    </div>
+  </form>
+</div>
+{%endblock%}
+
+{%block sidebarcontents%}
+{{display_population_card(species, population)}}
+{%endblock%}
diff --git a/uploader/templates/genotypes/list-genotypes.html b/uploader/templates/genotypes/list-genotypes.html
index 0efc693..e4c39eb 100644
--- a/uploader/templates/genotypes/list-genotypes.html
+++ b/uploader/templates/genotypes/list-genotypes.html
@@ -90,7 +90,56 @@
 </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>
+
+  {%if dataset is not none%}
+    <table class="table">
+      <thead>
+        <tr>
+          <th>Name</th>
+          <th>Full Name</th>
+        </tr>
+      </thead>
+
+      <tbody>
+        <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>
+        </tr>
+      </tbody>
+    </table>
+  {%else%}
+  <p class="text-warning">
+    <span class="glyphicon glyphicon-exclamation-sign"></span>
+    There is no genotype dataset defined for this population.
+  </p>
+  <p>
+    <a href="{{url_for('species.populations.genotypes.create_dataset',
+             species_id=species.SpeciesId,
+             population_id=population.Id)}}"
+       title="Create a new genotype dataset for the '{{population.FullName}}' population for the '{{species.FullName}}' species."
+       class="btn btn-primary">
+      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>
 {%endblock%}
 
diff --git a/uploader/templates/genotypes/view-dataset.html b/uploader/templates/genotypes/view-dataset.html
new file mode 100644
index 0000000..e7ceb36
--- /dev/null
+++ b/uploader/templates/genotypes/view-dataset.html
@@ -0,0 +1,61 @@
+{%extends "genotypes/base.html"%}
+{%from "flash_messages.html" import flash_all_messages%}
+{%from "populations/macro-display-population-card.html" import display_population_card%}
+
+{%block title%}Genotypes: View Dataset{%endblock%}
+
+{%block pagetitle%}Genotypes: View Dataset{%endblock%}
+
+{%block lvl4_breadcrumbs%}
+<li {%if activelink=="view-dataset"%}
+    class="breadcrumb-item active"
+    {%else%}
+    class="breadcrumb-item"
+    {%endif%}>
+  <a href="{{url_for('species.populations.genotypes.view_dataset',
+           species_id=species.SpeciesId,
+           population_id=population.Id,
+           dataset_id=dataset.Id)}}">view dataset</a>
+</li>
+{%endblock%}
+
+{%block contents%}
+{{flash_all_messages()}}
+
+<div class="row">
+  <h2>Genotype Dataset Details</h2>
+  <table class="table">
+    <thead>
+      <tr>
+        <th>Name</th>
+        <th>Full Name</th>
+      </tr>
+    </thead>
+
+    <tbody>
+      <tr>
+        <td>{{dataset.Name}}</td>
+        <td>{{dataset.FullName}}</td>
+      </tr>
+    </tbody>
+  </table>
+</div>
+
+<div class="row text-warning">
+  <h2>Assembly Details</h2>
+
+  <p>Maybe include the assembly details here if found to be necessary.</p>
+</div>
+
+<div class="row">
+  <h2>Genotype Data</h2>
+
+  <p class="text-danger">
+    Provide link to enable uploading of genotype data here.</p>
+</div>
+
+{%endblock%}
+
+{%block sidebarcontents%}
+{{display_population_card(species, population)}}
+{%endblock%}