Publications: Move feature to new UI templates.

13 files changed, 79 insertions, 750 deletions

diff --git a/uploader/publications/views.py b/uploader/publications/views.py
index 11732db..d9eb294 100644
--- a/uploader/publications/views.py
+++ b/uploader/publications/views.py
@@ -10,8 +10,6 @@ from flask import (
     render_template,
     current_app as app)
 
-from uploader.sui import sui_template
-
 from uploader.flask_extensions import url_for
 from uploader.authorisation import require_login
 from uploader.route_utils import redirect_to_next
@@ -32,7 +30,7 @@ pubbp = Blueprint("publications", __name__)
 @require_login
 def index():
     """Index page for publications."""
-    return render_template(sui_template("publications/index.html"))
+    return render_template("publications/index.html")
 
 
 @pubbp.route("/list", methods=["GET"])
@@ -74,7 +72,7 @@ def view_publication(publication_id: int):
             return redirect(url_for('publications.index'))
 
         return render_template(
-            sui_template("publications/view-publication.html"),
+            "publications/view-publication.html",
             publication=publication,
             linked_phenotypes=tuple(fetch_publication_phenotypes(
                 conn, publication_id)))
@@ -92,7 +90,7 @@ def create_publication():
 
     if request.method == "GET":
         return render_template(
-            sui_template("publications/create-publication.html"),
+            "publications/create-publication.html",
             get_args=_get_args)
     form = request.form
     authors = form.get("publication-authors").encode("utf8")
@@ -130,7 +128,7 @@ def edit_publication(publication_id: int):
     with database_connection(app.config["SQL_URI"]) as conn:
         if request.method == "GET":
             return render_template(
-                sui_template("publications/edit-publication.html"),
+                "publications/edit-publication.html",
                 publication=fetch_publication_by_id(conn, publication_id),
                 linked_phenotypes=tuple(fetch_publication_phenotypes(
                     conn, publication_id)),
@@ -181,12 +179,12 @@ def delete_publication(publication_id: int):
             flash("Cannot delete publication with linked phenotypes!",
                   "alert-warning")
             return redirect(url_for(
-                sui_template("publications.view_publication"),
+                "publications.view_publication",
                 publication_id=publication_id))
 
         if request.method == "GET":
             return render_template(
-                sui_template("publications/delete-publication.html"),
+                "publications/delete-publication.html",
                 publication=publication,
                 linked_phenotypes=linked_phenotypes,
                 publication_id=publication_id)
diff --git a/uploader/templates/publications/base.html b/uploader/templates/publications/base.html
index db80bfa..de0a350 100644
--- a/uploader/templates/publications/base.html
+++ b/uploader/templates/publications/base.html
@@ -1,12 +1,9 @@
 {%extends "base.html"%}
 
-{%block lvl1_breadcrumbs%}
-<li {%if activelink=="publications"%}
-    class="breadcrumb-item active"
-    {%else%}
-    class="breadcrumb-item"
-    {%endif%}>
-  <a href="{{url_for('publications.index')}}">Publications</a>
+{%block breadcrumbs%}
+{{super()}}
+<li class="breadcrumb-item">
+  <a href="{{url_for('publications.index')}}"
+     title="Manage publications">Publications</a>
 </li>
-{%block lvl2_breadcrumbs%}{%endblock%}
 {%endblock%}
diff --git a/uploader/templates/publications/create-publication.html b/uploader/templates/publications/create-publication.html
index 3f828a9..fb0127d 100644
--- a/uploader/templates/publications/create-publication.html
+++ b/uploader/templates/publications/create-publication.html
@@ -3,7 +3,13 @@
 
 {%block title%}View Publication{%endblock%}
 
-{%block pagetitle%}View Publication{%endblock%}
+{%block breadcrumbs%}
+{{super()}}
+<li class="breadcrumb-item">
+  <a href="{{url_for('publications.create_publication', **get_args)}}"
+     title="Manage publications">create publication</a>
+</li>
+{%endblock%}
 
 
 {%block contents%}
@@ -12,7 +18,7 @@
 <div class="row">
   <form id="frm-create-publication"
         method="POST"
-        action="{{url_for('publications.create_publication', **request.args)}}"
+        action="{{url_for('publications.create_publication', **get_args)}}"
         class="form-horizontal">
 
     <div class="row mb-3">
@@ -152,11 +158,14 @@
       </div>
     </div>
 
-    <div class="row mb-3">
-      <div class="col-sm-2"></div>
-      <div class="col-sm-8">
-        <input type="submit" class="btn btn-primary" value="Add" />
-        <input type="reset" class="btn btn-danger" />
+    <div class="row">
+      <div class="col">
+        <input type="submit"
+               class="btn btn-primary"
+               value="create publication" />
+      </div>
+      <div class="col">
+        <input type="reset" class="btn btn-danger" value="reset form" />
       </div>
     </div>
 
diff --git a/uploader/templates/publications/delete-publication.html b/uploader/templates/publications/delete-publication.html
index 0ac93ec..a9c8c7c 100644
--- a/uploader/templates/publications/delete-publication.html
+++ b/uploader/templates/publications/delete-publication.html
@@ -1,9 +1,16 @@
 {%extends "publications/base.html"%}
 {%from "flash_messages.html" import flash_all_messages%}
 
-{%block title%}View Publication{%endblock%}
+{%block title%}Delete Publication{%endblock%}
 
-{%block pagetitle%}View Publication{%endblock%}
+{%block breadcrumbs%}
+{{super()}}
+<li class="breadcrumb-item">
+  <a href="{{url_for('publications.delete_publication',
+           publication_id=publication.Id)}}"
+     title="Manage publications">delete publication</a>
+</li>
+{%endblock%}
 
 
 {%block contents%}
diff --git a/uploader/templates/publications/edit-publication.html b/uploader/templates/publications/edit-publication.html
index 97fa134..314a78c 100644
--- a/uploader/templates/publications/edit-publication.html
+++ b/uploader/templates/publications/edit-publication.html
@@ -1,9 +1,16 @@
 {%extends "publications/base.html"%}
 {%from "flash_messages.html" import flash_all_messages%}
 
-{%block title%}View Publication{%endblock%}
-
-{%block pagetitle%}View Publication{%endblock%}
+{%block title%}Edit Publication{%endblock%}
+
+{%block breadcrumbs%}
+{{super()}}
+<li class="breadcrumb-item">
+  <a href="{{url_for('publications.edit_publication',
+           publication_id=publication.Id)}}"
+     title="Edit the publication's details">edit publication</a>
+</li>
+{%endblock%}
 
 
 {%block contents%}
diff --git a/uploader/templates/publications/index.html b/uploader/templates/publications/index.html
index 369812b..54d3fc0 100644
--- a/uploader/templates/publications/index.html
+++ b/uploader/templates/publications/index.html
@@ -3,16 +3,22 @@
 
 {%block title%}Publications{%endblock%}
 
-{%block pagetitle%}Publications{%endblock%}
-
 
 {%block contents%}
 {{flash_all_messages()}}
 
 <div class="row" style="padding-bottom: 1em;">
-  <a href="{{url_for('publications.create_publication')}}"
-     class="btn btn-primary">
-    add new publication</a>
+  <div class="col">
+    <a href="{{url_for('publications.create_publication')}}"
+       class="btn btn-primary"
+       title="Create a new publication.">
+      add new publication</a>
+  </div>
+</div>
+
+<div class="row">
+  <p>Click on title to view more details and to edit details for that
+    publication.</p>
 </div>
 
 <div class="row">
@@ -33,6 +39,8 @@
 
 
 {%block javascript%}
+<script type="text/javascript" src="/static/js/urls.js"></script>
+
 <script type="text/javascript">
   $(function() {
       var publicationsDataTable = buildDataTable(
@@ -43,24 +51,25 @@
               {
                   searchable: true,
                   data: (pub) => {
-                  if(pub.PubMed_ID) {
-                      return `<a href="https://pubmed.ncbi.nlm.nih.gov/` +
-                          `${pub.PubMed_ID}/" target="_blank" ` +
-                          `title="Link to publication on NCBI.">` +
-                          `${pub.PubMed_ID}</a>`;
-                  }
-                  return "";
+                      if(pub.PubMed_ID) {
+                          return `<a href="https://pubmed.ncbi.nlm.nih.gov/` +
+                              `${pub.PubMed_ID}/" target="_blank" ` +
+                              `title="Link to publication on NCBI.">` +
+                              `${pub.PubMed_ID}</a>`;
+                      }
+                      return "";
                   }
               },
               {
                   searchable: true,
                   data: (pub) => {
-                  var title = "⸻";
-                  if(pub.Title) {
-                      title = pub.Title
-                  }
-                  return `<a href="/publications/view/${pub.Id}" ` +
-                          `target="_blank" ` +
+                      var title = "⸻";
+                      if(pub.Title) {
+                          title = pub.Title
+                      }
+                      url=buildURLFromCurrentURL(
+                          `/publications/view/${pub.Id}`);
+                      return `<a href="${url}" target="_blank" ` +
                           `title="Link to view publication details">` +
                           `${title}</a>`;
                   }
@@ -68,12 +77,12 @@
               {
                   searchable: true,
                   data: (pub) => {
-                  authors = pub.Authors.split(",").map(
-                      (item) => {return item.trim();});
-                  if(authors.length > 1) {
-                      return authors[0] + ", et. al.";
-                  }
-                  return authors[0];
+                      authors = pub.Authors.split(",").map(
+                          (item) => {return item.trim();});
+                      if(authors.length > 1) {
+                          return authors[0] + ", et. al.";
+                      }
+                      return authors[0];
                   }
               }
           ],
diff --git a/uploader/templates/publications/sui-base.html b/uploader/templates/publications/sui-base.html
deleted file mode 100644
index 64e41ef..0000000
--- a/uploader/templates/publications/sui-base.html
+++ /dev/null
@@ -1,9 +0,0 @@
-{%extends "sui-base.html"%}
-
-{%block breadcrumbs%}
-{{super()}}
-<li class="breadcrumb-item">
-  <a href="{{url_for('publications.index')}}"
-     title="Manage publications">Publications</a>
-</li>
-{%endblock%}
diff --git a/uploader/templates/publications/sui-create-publication.html b/uploader/templates/publications/sui-create-publication.html
deleted file mode 100644
index 81edca6..0000000
--- a/uploader/templates/publications/sui-create-publication.html
+++ /dev/null
@@ -1,200 +0,0 @@
-{%extends "publications/sui-base.html"%}
-{%from "flash_messages.html" import flash_all_messages%}
-
-{%block title%}View Publication{%endblock%}
-
-{%block breadcrumbs%}
-{{super()}}
-<li class="breadcrumb-item">
-  <a href="{{url_for('publications.create_publication', **get_args)}}"
-     title="Manage publications">create publication</a>
-</li>
-{%endblock%}
-
-
-{%block contents%}
-{{flash_all_messages()}}
-
-<div class="row">
-  <form id="frm-create-publication"
-        method="POST"
-        action="{{url_for('publications.create_publication', **get_args)}}"
-        class="form-horizontal">
-
-    <div class="row mb-3">
-      <label for="txt-pubmed-id" class="col-sm-2 col-form-label">
-        PubMed ID</label>
-      <div class="col-sm-10">
-        <div class="input-group">
-          <input type="text"
-                 id="txt-pubmed-id"
-                 name="pubmed-id"
-                 class="form-control"/>
-          <div class="input-group-text">
-            <button class="btn btn-outline-primary"
-                    id="btn-search-pubmed-id">search</button>
-          </div>
-        </div>
-        <span id="search-pubmed-id-error"
-              class="form-text text-muted text-danger visually-hidden">
-        </span>
-        <span class="form-text text-muted">This is the publication's ID on
-          <a href="https://pubmed.ncbi.nlm.nih.gov/"
-             title="Link to NCBI's PubMed service">NCBI's Pubmed Service</a>
-        </span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="txt-publication-title" class="col-sm-2 col-form-label">
-        Title</label>
-      <div class="col-sm-10">
-        <input type="text"
-               id="txt-publication-title"
-               name="publication-title"
-               class="form-control" />
-        <span class="form-text text-muted">Provide the publication's title here.</span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="txt-publication-authors" class="col-sm-2 col-form-label">
-        Authors</label>
-      <div class="col-sm-10">
-        <input type="text"
-               id="txt-publication-authors"
-               name="publication-authors"
-               required="required"
-               class="form-control" />
-        <span class="form-text text-muted">
-          A publication <strong>MUST</strong> have an author. You <em>must</em>
-          provide a value for the authors field.
-        </span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="txt-publication-journal" class="col-sm-2 col-form-label">
-        Journal</label>
-      <div class="col-sm-10">
-        <input type="text"
-               id="txt-publication-journal"
-               name="publication-journal"
-               class="form-control" />
-        <span class="form-text text-muted">Provide the name journal where the
-          publication was done, here.</span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="select-publication-month"
-             class="col-sm-2 col-form-label">
-        Month</label>
-      <div class="col-sm-4">
-        <select class="form-control"
-                id="select-publication-month"
-                name="publication-month">
-          <option value="">Select a month</option>
-          <option value="january">January</option>
-          <option value="february">February</option>
-          <option value="march">March</option>
-          <option value="april">April</option>
-          <option value="may">May</option>
-          <option value="june">June</option>
-          <option value="july">July</option>
-          <option value="august">August</option>
-          <option value="september">September</option>
-          <option value="october">October</option>
-          <option value="november">November</option>
-          <option value="december">December</option>
-        </select>
-        <span class="form-text text-muted">Month of publication</span>
-      </div>
-
-      <label for="txt-publication-year"
-             class="col-sm-2 col-form-label">
-        Year</label>
-      <div class="col-sm-4">
-        <input type="number"
-               id="txt-publication-year"
-               name="publication-year"
-               class="form-control"
-               min="1960" />
-        <span class="form-text text-muted">Year of publication</span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="txt-publication-volume"
-             class="col-sm-2 col-form-label">
-        Volume</label>
-      <div class="col-sm-4">
-        <input type="text"
-               id="txt-publication-volume"
-               name="publication-volume"
-               class="form-control">
-        <span class="form-text text-muted">Journal volume</span>
-      </div>
-
-      <label for="txt-publication-pages"
-             class="col-sm-2 col-form-label">
-        Pages</label>
-      <div class="col-sm-4">
-        <input type="text"
-               id="txt-publication-pages"
-               name="publication-pages"
-               class="form-control" />
-        <span class="form-text text-muted">Journal pages for the publication</span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="txt-abstract" class="col-sm-2 col-form-label">Abstract</label>
-      <div class="col-sm-10">
-        <textarea id="txt-publication-abstract"
-                  name="publication-abstract"
-                  class="form-control"
-                  rows="7"></textarea>
-      </div>
-    </div>
-
-    <div class="row">
-      <div class="col">
-        <input type="submit"
-               class="btn btn-primary"
-               value="create publication" />
-      </div>
-      <div class="col">
-        <input type="reset" class="btn btn-danger" value="reset form" />
-      </div>
-    </div>
-
-</form>
-</div>
-
-{%endblock%}
-
-
-{%block javascript%}
-<script type="text/javascript" src="/static/js/pubmed.js"></script>
-<script type="text/javascript">
-  $(function() {
-      $("#btn-search-pubmed-id").on("click", (event) => {
-          event.preventDefault();
-          var search_button = event.target;
-          var pubmed_id = $("#txt-pubmed-id").val().trim();
-          remove_class($("#txt-pubmed-id").parent(), "has-error");
-          if(pubmed_id == "") {
-              add_class($("#txt-pubmed-id").parent(), "has-error");
-              return false;
-          }
-
-          search_button.disabled = true;
-          // Fetch publication details
-          fetch_publication_details(pubmed_id,
-                                    [() => {search_button.disabled = false;}]);
-          return false;
-      });
-  });
-</script>
-{%endblock%}
diff --git a/uploader/templates/publications/sui-delete-publication.html b/uploader/templates/publications/sui-delete-publication.html
deleted file mode 100644
index 436f2c1..0000000
--- a/uploader/templates/publications/sui-delete-publication.html
+++ /dev/null
@@ -1,95 +0,0 @@
-{%extends "publications/sui-base.html"%}
-{%from "flash_messages.html" import flash_all_messages%}
-
-{%block title%}Delete Publication{%endblock%}
-
-{%block breadcrumbs%}
-{{super()}}
-<li class="breadcrumb-item">
-  <a href="{{url_for('publications.delete_publication',
-           publication_id=publication.Id)}}"
-     title="Manage publications">delete publication</a>
-</li>
-{%endblock%}
-
-
-{%block contents%}
-{{flash_all_messages()}}
-<div class="row">
-  <p>You are about to delete the publication with the following details:</p>
-</div>
-
-<div class="row">
-  <table class="table">
-    <tr>
-      <th>Linked Phenotypes</th>
-      <td>{{linked_phenotypes | count}}</td>
-    </tr>
-    <tr>
-      <th>PubMed</th>
-      <td>
-        {%if publication.PubMed_ID%}
-        <a href="https://pubmed.ncbi.nlm.nih.gov/{{publication.PubMed_ID}}/"
-           target="_blank">{{publication.PubMed_ID}}</a>
-        {%else%}
-        —
-        {%endif%}
-      </td>
-    </tr>
-    <tr>
-      <th>Title</th>
-      <td>{{publication.Title or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Authors</th>
-      <td>{{publication.Authors or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Journal</th>
-      <td>{{publication.Journal or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Published</th>
-      <td>{{publication.Month or ""}} {{publication.Year or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Volume</th>
-      <td>{{publication.Volume or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Pages</th>
-      <td>{{publication.Pages or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Abstract</th>
-      <td>
-        {%for line in (publication.Abstract or "—").replace("\r\n", "<br />").replace("\n", "<br />").split("<br />")%}
-        <p>{{line}}</p>
-        {%endfor%}
-      </td>
-    </tr>
-  </table>
-</div>
-
-<div class="row">
-  <p>If you are sure that is what you want, click the button below to delete the
-    publication</p>
-  <p class="form-text text-small">
-    <small>You will not be able to recover the data if you click
-      delete below.</small></p>
-
-  <form action="{{url_for('publications.delete_publication', publication_id=publication_id)}}"
-        method="POST">
-    <div class="form-group">
-      <input type="submit" value="delete" class="btn btn-danger" />
-    </div>
-  </form>
-</div>
-{%endblock%}
-
-
-{%block javascript%}
-<script type="text/javascript">
-  $(function() {});
-</script>
-{%endblock%}
diff --git a/uploader/templates/publications/sui-edit-publication.html b/uploader/templates/publications/sui-edit-publication.html
deleted file mode 100644
index 847b020..0000000
--- a/uploader/templates/publications/sui-edit-publication.html
+++ /dev/null
@@ -1,203 +0,0 @@
-{%extends "publications/sui-base.html"%}
-{%from "flash_messages.html" import flash_all_messages%}
-
-{%block title%}Edit Publication{%endblock%}
-
-{%block breadcrumbs%}
-{{super()}}
-<li class="breadcrumb-item">
-  <a href="{{url_for('publications.edit_publication',
-           publication_id=publication.Id)}}"
-     title="Edit the publication's details">edit publication</a>
-</li>
-{%endblock%}
-
-
-{%block contents%}
-{{flash_all_messages()}}
-
-<div class="row">
-  <form id="frm-create-publication"
-        method="POST"
-        action="{{url_for('publications.edit_publication',
-                publication_id=publication_id,
-                next=request.args.get('next', ''))}}"
-        class="form-horizontal">
-
-    <div class="row mb-3">
-      <label for="txt-pubmed-id" class="col-sm-2 col-form-label">
-        PubMed ID</label>
-      <div class="col-sm-10">
-        <div class="input-group">
-          <input type="text"
-                 id="txt-pubmed-id"
-                 name="pubmed-id"
-                 value="{{publication.PubMed_ID or ''}}"
-                 class="form-control" />
-          <div class="input-group-text">
-            <button class="btn btn-outline-primary"
-                    id="btn-search-pubmed-id">search</button>
-          </div>
-        </div>
-        <span id="search-pubmed-id-error"
-              class="form-text text-muted text-danger visually-hidden">
-        </span>
-        <span class="form-text text-muted">This is the publication's ID on
-          <a href="https://pubmed.ncbi.nlm.nih.gov/"
-             title="Link to NCBI's PubMed service">NCBI's Pubmed Service</a>
-        </span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="txt-publication-title" class="col-sm-2 col-form-label">
-        Title</label>
-      <div class="col-sm-10">
-        <input type="text"
-               id="txt-publication-title"
-               name="publication-title"
-               value="{{publication.Title}}"
-               class="form-control" />
-        <span class="form-text text-muted">Provide the publication's title here.</span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="txt-publication-authors" class="col-sm-2 col-form-label">
-        Authors</label>
-      <div class="col-sm-10">
-        <input type="text"
-               id="txt-publication-authors"
-               name="publication-authors"
-               value="{{publication.Authors}}"
-               required="required"
-               class="form-control" />
-        <span class="form-text text-muted">
-          A publication <strong>MUST</strong> have an author. You <em>must</em>
-          provide a value for the authors field.
-        </span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="txt-publication-journal" class="col-sm-2 col-form-label">
-        Journal</label>
-      <div class="col-sm-10">
-        <input type="text"
-               id="txt-publication-journal"
-               name="publication-journal"
-               value="{{publication.Journal}}"
-               class="form-control" />
-        <span class="form-text text-muted">Provide the name journal where the
-          publication was done, here.</span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="select-publication-month"
-             class="col-sm-2 col-form-label">
-        Month</label>
-      <div class="col-sm-4">
-        <select class="form-control"
-                id="select-publication-month"
-                name="publication-month">
-          <option value="">Select a month</option>
-          {%for month in ("january", "february", "march", "april", "may", "june", "july", "august", "september", "october", "november", "december"):%}
-          <option value="{{month}}"
-                  {%if publication.Month | lower == month %}
-                  selected="selected"
-                  {%endif%}>
-            {{month | title}}
-          </option>
-          {%endfor%}
-        </select>
-        <span class="form-text text-muted">Month of publication</span>
-      </div>
-
-      <label for="txt-publication-year"
-             class="col-sm-2 col-form-label">
-        Year</label>
-      <div class="col-sm-4">
-        <input type="number"
-               id="txt-publication-year"
-               name="publication-year"
-               value="{{publication.Year}}"
-               class="form-control"
-               min="1960" />
-        <span class="form-text text-muted">Year of publication</span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="txt-publication-volume"
-             class="col-sm-2 col-form-label">
-        Volume</label>
-      <div class="col-sm-4">
-        <input type="text"
-               id="txt-publication-volume"
-               name="publication-volume"
-               value="{{publication.Volume}}"
-               class="form-control">
-        <span class="form-text text-muted">Journal volume</span>
-      </div>
-
-      <label for="txt-publication-pages"
-             class="col-sm-2 col-form-label">
-        Pages</label>
-      <div class="col-sm-4">
-        <input type="text"
-               id="txt-publication-pages"
-               name="publication-pages"
-               value="{{publication.Pages}}"
-               class="form-control" />
-        <span class="form-text text-muted">Journal pages for the publication</span>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <label for="txt-abstract" class="col-sm-2 col-form-label">Abstract</label>
-      <div class="col-sm-10">
-        <textarea id="txt-publication-abstract"
-                  name="publication-abstract"
-                  class="form-control"
-                  rows="7">{{publication.Abstract or ""}}</textarea>
-      </div>
-    </div>
-
-    <div class="row mb-3">
-      <div class="col-sm-2"></div>
-      <div class="col-sm-8">
-        <input type="submit" class="btn btn-primary" value="Save" />
-        <input type="reset" class="btn btn-danger" />
-      </div>
-    </div>
-
-</form>
-</div>
-
-{%endblock%}
-
-
-{%block javascript%}
-<script type="text/javascript" src="/static/js/pubmed.js"></script>
-<script type="text/javascript">
-  $(function() {
-      $("#btn-search-pubmed-id").on("click", (event) => {
-          event.preventDefault();
-          var search_button = event.target;
-          var pubmed_id = $("#txt-pubmed-id").val().trim();
-          remove_class($("#txt-pubmed-id").parent(), "has-error");
-          if(pubmed_id == "") {
-              add_class($("#txt-pubmed-id").parent(), "has-error");
-              return false;
-          }
-
-          search_button.disabled = true;
-          // Fetch publication details
-          fetch_publication_details(pubmed_id,
-                                    [() => {search_button.disabled = false;}]);
-          return false;
-      });
-  });
-</script>
-{%endblock%}
diff --git a/uploader/templates/publications/sui-index.html b/uploader/templates/publications/sui-index.html
deleted file mode 100644
index e405dd1..0000000
--- a/uploader/templates/publications/sui-index.html
+++ /dev/null
@@ -1,109 +0,0 @@
-{%extends "publications/sui-base.html"%}
-{%from "flash_messages.html" import flash_all_messages%}
-
-{%block title%}Publications{%endblock%}
-
-
-{%block contents%}
-{{flash_all_messages()}}
-
-<div class="row" style="padding-bottom: 1em;">
-  <div class="col">
-    <a href="{{url_for('publications.create_publication')}}"
-       class="btn btn-primary"
-       title="Create a new publication.">
-      add new publication</a>
-  </div>
-</div>
-
-<div class="row">
-  <p>Click on title to view more details and to edit details for that
-    publication.</p>
-</div>
-
-<div class="row">
-  <table id="tbl-list-publications" class="table compact stripe">
-    <thead>
-      <tr>
-        <th>#</th>
-        <th>PubMed ID</th>
-        <th>Title</th>
-        <th>Authors</th>
-      </tr>
-    </thead>
-
-    <tbody></tbody>
-  </table>
-</div>
-{%endblock%}
-
-
-{%block javascript%}
-<script type="text/javascript" src="/static/js/urls.js"></script>
-
-<script type="text/javascript">
-  $(function() {
-      var publicationsDataTable = buildDataTable(
-          "#tbl-list-publications",
-          [],
-          [
-              {data: "index"},
-              {
-                  searchable: true,
-                  data: (pub) => {
-                      if(pub.PubMed_ID) {
-                          return `<a href="https://pubmed.ncbi.nlm.nih.gov/` +
-                              `${pub.PubMed_ID}/" target="_blank" ` +
-                              `title="Link to publication on NCBI.">` +
-                              `${pub.PubMed_ID}</a>`;
-                      }
-                      return "";
-                  }
-              },
-              {
-                  searchable: true,
-                  data: (pub) => {
-                      var title = "⸻";
-                      if(pub.Title) {
-                          title = pub.Title
-                      }
-                      url=buildURLFromCurrentURL(
-                          `/publications/view/${pub.Id}`);
-                      return `<a href="${url}" target="_blank" ` +
-                          `title="Link to view publication details">` +
-                          `${title}</a>`;
-                  }
-              },
-              {
-                  searchable: true,
-                  data: (pub) => {
-                      authors = pub.Authors.split(",").map(
-                          (item) => {return item.trim();});
-                      if(authors.length > 1) {
-                          return authors[0] + ", et. al.";
-                      }
-                      return authors[0];
-                  }
-              }
-          ],
-          {
-              serverSide: true,
-              ajax: {
-                  url: "/publications/list",
-                  dataSrc: "publications"
-              },
-              scrollY: 700,
-              scroller: true,
-              scrollCollapse: true,
-              paging: true,
-              deferRender: true,
-              layout: {
-                  topStart: "info",
-                  topEnd: "search",
-                  bottomStart: "pageLength",
-                  bottomEnd: false
-              }
-          });
-  });
-</script>
-{%endblock%}
diff --git a/uploader/templates/publications/sui-view-publication.html b/uploader/templates/publications/sui-view-publication.html
deleted file mode 100644
index 740fc37..0000000
--- a/uploader/templates/publications/sui-view-publication.html
+++ /dev/null
@@ -1,80 +0,0 @@
-{%extends "publications/sui-base.html"%}
-{%from "flash_messages.html" import flash_all_messages%}
-
-{%block title%}View Publication{%endblock%}
-
-
-{%block contents%}
-{{flash_all_messages()}}
-
-<div class="row">
-  <table class="table">
-    <tr>
-      <th>Linked Phenotypes</th>
-      <td>{{linked_phenotypes | count}}</td>
-    </tr>
-    <tr>
-      <th>PubMed</th>
-      <td>
-        {%if publication.PubMed_ID%}
-        <a href="https://pubmed.ncbi.nlm.nih.gov/{{publication.PubMed_ID}}/"
-           target="_blank">{{publication.PubMed_ID}}</a>
-        {%else%}
-        —
-        {%endif%}
-      </td>
-    </tr>
-    <tr>
-      <th>Title</th>
-      <td>{{publication.Title or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Authors</th>
-      <td>{{publication.Authors or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Journal</th>
-      <td>{{publication.Journal or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Published</th>
-      <td>{{publication.Month or ""}} {{publication.Year or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Volume</th>
-      <td>{{publication.Volume or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Pages</th>
-      <td>{{publication.Pages or "—"}}</td>
-    </tr>
-    <tr>
-      <th>Abstract</th>
-      <td>
-        {%for line in (publication.Abstract or "—").replace("\r\n", "<br />").replace("\n", "<br />").split("<br />")%}
-        <p>{{line}}</p>
-        {%endfor%}
-      </td>
-    </tr>
-  </table>
-</div>
-
-<div class="row">
-  <div>
-  <a href="{{url_for('publications.edit_publication', publication_id=publication.Id)}}"
-     title="Edit details for this publication."
-     class="btn btn-primary">Edit</a>
-  {%if linked_phenotypes | length == 0%}
-  <a href="{{url_for('publications.delete_publication', publication_id=publication.Id)}}"
-     class="btn btn-danger">delete</a>
-  {%endif%}
-  </div>
-</div>
-{%endblock%}
-
-
-{%block javascript%}
-<script type="text/javascript">
-  $(function() {});
-</script>
-{%endblock%}
diff --git a/uploader/templates/publications/view-publication.html b/uploader/templates/publications/view-publication.html
index 0bd7bc5..01ccf1e 100644
--- a/uploader/templates/publications/view-publication.html
+++ b/uploader/templates/publications/view-publication.html
@@ -3,8 +3,6 @@
 
 {%block title%}View Publication{%endblock%}
 
-{%block pagetitle%}View Publication{%endblock%}
-
 
 {%block contents%}
 {{flash_all_messages()}}