From 30d2d8c3bea51a705752aaae519ff7b5ab70ba26 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Mon, 19 Jun 2023 08:37:23 +0300
Subject: Remove intermediate blueprint.

---
 wqflask/wqflask/__init__.py                        | 18 +++++++++++--
 wqflask/wqflask/templates/base.html                | 18 ++++++-------
 .../wqflask/templates/correlation_error_page.html  |  8 +++---
 wqflask/wqflask/templates/correlation_page.html    | 28 ++++++++++----------
 wqflask/wqflask/templates/loading.html             |  6 ++---
 wqflask/wqflask/templates/loading_corrs.html       |  6 ++---
 wqflask/wqflask/templates/search_result_page.html  | 24 ++++++++---------
 wqflask/wqflask/templates/show_trait.html          | 30 +++++++++++-----------
 wqflask/wqflask/templates/show_trait_details.html  |  4 +--
 wqflask/wqflask/templates/tool_buttons.html        |  2 +-
 wqflask/wqflask/top_level_routes.py                | 22 ----------------
 wqflask/wqflask/views.py                           |  2 +-
 12 files changed, 80 insertions(+), 88 deletions(-)
 delete mode 100644 wqflask/wqflask/top_level_routes.py

diff --git a/wqflask/wqflask/__init__.py b/wqflask/wqflask/__init__.py
index 3b7551e6..b9ad5c84 100644
--- a/wqflask/wqflask/__init__.py
+++ b/wqflask/wqflask/__init__.py
@@ -23,7 +23,14 @@ from wqflask.group_manager import group_management
 from wqflask.resource_manager import resource_management
 from wqflask.metadata_edits import metadata_edit
 
-from wqflask.top_level_routes import toplevel
+from base.trait import trait_bp
+from wqflask.api import api_bp
+from wqflask.views import main_views
+from wqflask.user_login import ulogin_bp
+from wqflask.user_session import usession_bp
+from wqflask.collect import collections_bp
+from wqflask.partial_correlations_views import pcorrs_bp
+
 from wqflask.api.markdown import glossary_blueprint
 from wqflask.api.markdown import references_blueprint
 from wqflask.api.markdown import links_blueprint
@@ -83,7 +90,14 @@ def create_app():
     app = webqtlConfig.init_app(app)
 
     # Registering blueprints
-    app.register_blueprint(toplevel)
+    app.register_blueprint(trait_bp)
+    app.register_blueprint(pcorrs_bp)
+    app.register_blueprint(ulogin_bp)
+    app.register_blueprint(main_views)
+    app.register_blueprint(usession_bp)
+    app.register_blueprint(collections_bp)
+    app.register_blueprint(api_bp, url_prefix="/api")
+
     app.register_blueprint(glossary_blueprint, url_prefix="/glossary")
     app.register_blueprint(references_blueprint, url_prefix="/references")
     app.register_blueprint(links_blueprint, url_prefix="/links")
diff --git a/wqflask/wqflask/templates/base.html b/wqflask/wqflask/templates/base.html
index 5a881f51..7cda4bab 100644
--- a/wqflask/wqflask/templates/base.html
+++ b/wqflask/wqflask/templates/base.html
@@ -12,7 +12,7 @@
     </script>
     <link rel="icon" type="image/png" sizes="64x64" href="/static/new/images/CITGLogo.png">
     <link rel="apple-touch-icon" type="image/png" sizes="64x64" href="/static/new/images/CITGLogo.png">
-    <link REL="stylesheet" TYPE="text/css" href="{{ url_for('toplevel.main_views.css', filename='bootstrap/css/bootstrap.css') }}" />
+    <link REL="stylesheet" TYPE="text/css" href="{{ url_for('main_views.css', filename='bootstrap/css/bootstrap.css') }}" />
     <link REL="stylesheet" TYPE="text/css" href="/static/new/css/bootstrap-custom.css" />
     <link REL="stylesheet" TYPE="text/css" href="/static/new/css/non-responsive.css" />
     <link REL="stylesheet" TYPE="text/css" href="/static/new/css/docs.css" />
@@ -30,10 +30,10 @@
             border-radius: 1rem;
         }
         table.dataTable thead .sorting_asc {
-            background-image: url({{ url_for("toplevel.main_views.js", filename="DataTables/images/sort_asc_disabled.png") }});
+            background-image: url({{ url_for("main_views.js", filename="DataTables/images/sort_asc_disabled.png") }});
         }
         table.dataTable thead .sorting_desc {
-            background-image: url({{ url_for("toplevel.main_views.js", filename="DataTables/images/sort_desc_disabled.png") }});
+            background-image: url({{ url_for("main_views.js", filename="DataTables/images/sort_desc_disabled.png") }});
         }
 
 
@@ -336,8 +336,8 @@
         <!--  <button class="btn btn-primary">Save changes</button>-->
         <!--</div>-->
     </div>
-    <script src="{{ url_for('toplevel.main_views.js', filename='jquery/jquery.min.js') }}" type="text/javascript"></script>
-    <script src="{{ url_for('toplevel.main_views.js', filename='bootstrap/js/bootstrap.min.js') }}" type="text/javascript"></script>
+    <script src="{{ url_for('main_views.js', filename='jquery/jquery.min.js') }}" type="text/javascript"></script>
+    <script src="{{ url_for('main_views.js', filename='bootstrap/js/bootstrap.min.js') }}" type="text/javascript"></script>
     <script src="/static/new/javascript/search_autocomplete.js"></script>
     <script>
     //http://stackoverflow.com/questions/11521763/bootstrap-scrollspy-not-working
@@ -389,11 +389,11 @@
 
     });
     </script>
-    <script src="{{ url_for('toplevel.main_views.js', filename='jquery-cookie/jquery.cookie.js') }}" type="text/javascript"></script>
+    <script src="{{ url_for('main_views.js', filename='jquery-cookie/jquery.cookie.js') }}" type="text/javascript"></script>
     <script src="https://ajax.googleapis.com/ajax/libs/jqueryui/1.12.1/jquery-ui.min.js"></script>
-    <!-- <script src="{{ url_for('toplevel.main_views.js', filename='jquery-ui/jquery-ui.min.js') }}" type="text/javascript"></script> -->
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='colorbox/jquery.colorbox-min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='js_alt/parsley.min.js') }}"></script>
+    <!-- <script src="{{ url_for('main_views.js', filename='jquery-ui/jquery-ui.min.js') }}" type="text/javascript"></script> -->
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='colorbox/jquery.colorbox-min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='js_alt/parsley.min.js') }}"></script>
     {% block js %}
     {% endblock %}
     <script type="text/javascript">
diff --git a/wqflask/wqflask/templates/correlation_error_page.html b/wqflask/wqflask/templates/correlation_error_page.html
index 34f4c601..be3da15a 100644
--- a/wqflask/wqflask/templates/correlation_error_page.html
+++ b/wqflask/wqflask/templates/correlation_error_page.html
@@ -2,10 +2,10 @@
 {%block title%}Correlation Results{%endblock%}
 
 {%block css%}
-<link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.css', filename='DataTables/css/jquery.dataTables.css') }}" />
-<link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/buttonsBootstrap/css/buttons.bootstrap.css') }}" />
-<link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/buttonStyles/css/buttons.dataTables.min.css') }}" />
-<link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.css', filename='fontawesome/css/all.min.css') }}"/>
+<link rel="stylesheet" type="text/css" href="{{ url_for('main_views.css', filename='DataTables/css/jquery.dataTables.css') }}" />
+<link rel="stylesheet" type="text/css" href="{{ url_for('main_views.js', filename='DataTablesExtensions/buttonsBootstrap/css/buttons.bootstrap.css') }}" />
+<link rel="stylesheet" type="text/css" href="{{ url_for('main_views.js', filename='DataTablesExtensions/buttonStyles/css/buttons.dataTables.min.css') }}" />
+<link rel="stylesheet" type="text/css" href="{{ url_for('main_views.css', filename='fontawesome/css/all.min.css') }}"/>
 <link rel="stylesheet" type="text/css" href="/static/new/css/trait_list.css" />
 <link rel="stylesheet" type="text/css" href="/static/new/css/show_trait.css" />
 {%endblock%}
diff --git a/wqflask/wqflask/templates/correlation_page.html b/wqflask/wqflask/templates/correlation_page.html
index 70b996db..853a6c0a 100644
--- a/wqflask/wqflask/templates/correlation_page.html
+++ b/wqflask/wqflask/templates/correlation_page.html
@@ -1,10 +1,10 @@
 {% extends "base.html" %}
 {% block title %}Correlation Results{% endblock %}
 {% block css %}
-    <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.css', filename='DataTables/css/jquery.dataTables.css') }}" />
-    <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/buttonsBootstrap/css/buttons.bootstrap.css') }}" />
-    <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/buttonStyles/css/buttons.dataTables.min.css') }}">
-    <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.css', filename='fontawesome/css/all.min.css') }}"/>
+    <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.css', filename='DataTables/css/jquery.dataTables.css') }}" />
+    <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.js', filename='DataTablesExtensions/buttonsBootstrap/css/buttons.bootstrap.css') }}" />
+    <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.js', filename='DataTablesExtensions/buttonStyles/css/buttons.dataTables.min.css') }}">
+    <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.css', filename='fontawesome/css/all.min.css') }}"/>
     <link rel="stylesheet" type="text/css" href="/static/new/css/trait_list.css" />
     <link rel="stylesheet" type="text/css" href="/static/new/css/show_trait.css" />
 {% endblock %}
@@ -131,16 +131,16 @@
 {% endblock %}
 
 {% block js %}
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='js_alt/md5.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='js_alt/underscore.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='jszip/jszip.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='js_alt/underscore.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTables/js/jquery.dataTables.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/buttons/js/dataTables.buttons.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/buttons/js/buttons.html5.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/plugins/sorting/natural.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='fontawesome/js/all.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/scroller/js/dataTables.scroller.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='js_alt/md5.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='js_alt/underscore.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='jszip/jszip.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='js_alt/underscore.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTables/js/jquery.dataTables.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/buttons/js/dataTables.buttons.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/buttons/js/buttons.html5.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/plugins/sorting/natural.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='fontawesome/js/all.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/scroller/js/dataTables.scroller.min.js') }}"></script>
     <script type="text/javascript" src="/static/new/javascript/search_results.js"></script>
     <script type="text/javascript" src="/static/new/javascript/table_functions.js"></script>
     <script type="text/javascript" src="/static/new/javascript/create_datatable.js"></script>
diff --git a/wqflask/wqflask/templates/loading.html b/wqflask/wqflask/templates/loading.html
index 35a58586..3d4c4643 100644
--- a/wqflask/wqflask/templates/loading.html
+++ b/wqflask/wqflask/templates/loading.html
@@ -1,5 +1,5 @@
 <title>Loading {{ start_vars.tool_used }} Results</title>
-<link REL="stylesheet" TYPE="text/css" href="{{ url_for('toplevel.main_views.css', filename='bootstrap/css/bootstrap.css') }}" />
+<link REL="stylesheet" TYPE="text/css" href="{{ url_for('main_views.css', filename='bootstrap/css/bootstrap.css') }}" />
 <link REL="stylesheet" TYPE="text/css" href="/static/new/css/bootstrap-custom.css" />
 <form method="post" action="" name="loading_form" id="loading_form" class="form-horizontal">
   {% for key, value in start_vars.items() %}
@@ -100,8 +100,8 @@
     </div>
   </div>
 </form>
-<script src="{{ url_for('toplevel.main_views.js', filename='jquery/jquery.min.js') }}" type="text/javascript"></script>
-<script src="{{ url_for('toplevel.main_views.js', filename='bootstrap/js/bootstrap.min.js') }}" type="text/javascript"></script>
+<script src="{{ url_for('main_views.js', filename='jquery/jquery.min.js') }}" type="text/javascript"></script>
+<script src="{{ url_for('main_views.js', filename='bootstrap/js/bootstrap.min.js') }}" type="text/javascript"></script>
 <script  type="text/javascript">
 $('#show_full_diff').click(function() {
   if ($('#diff_table_container').is(':visible')){
diff --git a/wqflask/wqflask/templates/loading_corrs.html b/wqflask/wqflask/templates/loading_corrs.html
index 4772b8ce..bfcbcf57 100644
--- a/wqflask/wqflask/templates/loading_corrs.html
+++ b/wqflask/wqflask/templates/loading_corrs.html
@@ -8,7 +8,7 @@
     <meta http-equiv="refresh" content="5">
 
     <link rel="stylesheet" type="text/css"
-	  href="{{url_for('toplevel.main_views.css', filename='bootstrap/css/bootstrap.css')}}" />
+	  href="{{url_for('main_views.css', filename='bootstrap/css/bootstrap.css')}}" />
     <link rel="stylesheet" type="text/css"
 	  href="/static/new/css/bootstrap-custom.css" />
   </head>
@@ -21,8 +21,8 @@
       </div>
     </div>
 
-    <script src="{{ url_for('toplevel.main_views.js', filename='jquery/jquery.min.js') }}" type="text/javascript"></script>
-    <script src="{{ url_for('toplevel.main_views.js', filename='bootstrap/js/bootstrap.min.js') }}" type="text/javascript"></script>
+    <script src="{{ url_for('main_views.js', filename='jquery/jquery.min.js') }}" type="text/javascript"></script>
+    <script src="{{ url_for('main_views.js', filename='bootstrap/js/bootstrap.min.js') }}" type="text/javascript"></script>
   </body>
 
 </html>
diff --git a/wqflask/wqflask/templates/search_result_page.html b/wqflask/wqflask/templates/search_result_page.html
index fb92b9ed..15ec75d7 100644
--- a/wqflask/wqflask/templates/search_result_page.html
+++ b/wqflask/wqflask/templates/search_result_page.html
@@ -1,10 +1,10 @@
 {% extends "base.html" %}
 {% block title %}Search Results{% endblock %}
 {% block css %}
-    <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.css', filename='DataTables/css/jquery.dataTables.css') }}" />
-    <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.css', filename='fontawesome/css/font-awesome.min.css') }}" />
-    <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/buttonStyles/css/buttons.dataTables.min.css') }}">
-    <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.css', filename='fontawesome/css/all.min.css') }}"/>
+    <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.css', filename='DataTables/css/jquery.dataTables.css') }}" />
+    <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.css', filename='fontawesome/css/font-awesome.min.css') }}" />
+    <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.js', filename='DataTablesExtensions/buttonStyles/css/buttons.dataTables.min.css') }}">
+    <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.css', filename='fontawesome/css/all.min.css') }}"/>
     <link href="https://code.jquery.com/ui/1.12.1/themes/base/jquery-ui.css" rel="stylesheet" type="text/css" />
     <link rel="stylesheet" type="text/css" href="/static/new/css/show_trait.css" />
     <link rel="stylesheet" type="text/css" href="static/new/css/trait_list.css" />
@@ -153,14 +153,14 @@
 {% endblock %}
 
 {% block js %}
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='js_alt/md5.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTables/js/jquery.dataTables.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/scroller/js/dataTables.scroller.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='jszip/jszip.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/plugins/sorting/natural.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/buttons/js/dataTables.buttons.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/buttons/js/buttons.colVis.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='fontawesome/js/all.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='js_alt/md5.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTables/js/jquery.dataTables.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/scroller/js/dataTables.scroller.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='jszip/jszip.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/plugins/sorting/natural.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/buttons/js/dataTables.buttons.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/buttons/js/buttons.colVis.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='fontawesome/js/all.min.js') }}"></script>
 
     <script language="javascript" type="text/javascript" src="/static/new/javascript/search_results.js"></script>
     <script language="javascript" type="text/javascript" src="/static/new/javascript/table_functions.js"></script>
diff --git a/wqflask/wqflask/templates/show_trait.html b/wqflask/wqflask/templates/show_trait.html
index 3b3a8ac7..414a6ec0 100644
--- a/wqflask/wqflask/templates/show_trait.html
+++ b/wqflask/wqflask/templates/show_trait.html
@@ -8,9 +8,9 @@
   <link rel="stylesheet" type="text/css" href="/static/new/css/box_plot.css" />
   <link rel="stylesheet" type="text/css" href="/static/new/css/prob_plot.css" />
   <link rel="stylesheet" type="text/css" href="/static/new/css/scatter-matrix.css" />
-  <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.css', filename='d3-tip/d3-tip.css') }}" />
-  <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.css', filename='DataTables/css/jquery.dataTables.css') }}" />
-  <link rel="stylesheet" type="text/css" href="{{ url_for('toplevel.main_views.css', filename='nouislider/nouislider.min.css') }}" />
+  <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.css', filename='d3-tip/d3-tip.css') }}" />
+  <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.css', filename='DataTables/css/jquery.dataTables.css') }}" />
+  <link rel="stylesheet" type="text/css" href="{{ url_for('main_views.css', filename='nouislider/nouislider.min.css') }}" />
   <link href="https://code.jquery.com/ui/1.12.1/themes/base/jquery-ui.css" rel="stylesheet" type="text/css" />
   <link rel="stylesheet" type="text/css" href="/static/new/css/trait_list.css" />
   <link rel="stylesheet" type="text/css" href="/static/new/css/show_trait.css" />
@@ -139,13 +139,13 @@
         $('.collapse').collapse()
     </script>
 
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='d3js/d3.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='js_alt/underscore.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='underscore-string/underscore.string.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='d3-tip/d3-tip.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='js_alt/jstat.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='shapiro-wilk/shapiro-wilk.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='plotly/plotly.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='d3js/d3.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='js_alt/underscore.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='underscore-string/underscore.string.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='d3-tip/d3-tip.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='js_alt/jstat.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='shapiro-wilk/shapiro-wilk.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='plotly/plotly.min.js') }}"></script>
     <script language="javascript" type="text/javascript" src="/static/new/javascript/colorbrewer.js"></script>
 
     <script language="javascript" type="text/javascript" src="/static/new/javascript/stats.js"></script>
@@ -154,11 +154,11 @@
     <script language="javascript" type="text/javascript" src="/static/new/javascript/compare_traits_scatterplot.js"></script>
 
 
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTables/js/jquery.dataTables.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/plugins/sorting/scientific.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/plugins/sorting/natural.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='DataTablesExtensions/scroller/js/dataTables.scroller.min.js') }}"></script>
-    <script language="javascript" type="text/javascript" src="{{ url_for('toplevel.main_views.js', filename='nouislider/nouislider.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTables/js/jquery.dataTables.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/plugins/sorting/scientific.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/plugins/sorting/natural.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='DataTablesExtensions/scroller/js/dataTables.scroller.min.js') }}"></script>
+    <script language="javascript" type="text/javascript" src="{{ url_for('main_views.js', filename='nouislider/nouislider.js') }}"></script>
     <script language="javascript" type="text/javascript" src="/static/new/javascript/table_functions.js"></script>
     <script language="javascript" type="text/javascript" src="/static/new/javascript/create_datatable.js"></script>
     <script language="javascript" type="text/javascript" src="/static/new/javascript/initialize_show_trait_tables.js"></script>
diff --git a/wqflask/wqflask/templates/show_trait_details.html b/wqflask/wqflask/templates/show_trait_details.html
index e8cedb95..795267dd 100644
--- a/wqflask/wqflask/templates/show_trait_details.html
+++ b/wqflask/wqflask/templates/show_trait_details.html
@@ -63,7 +63,7 @@
                 {{ dataset.fullname }}
             </a>
 	    <br/>
-	    <a href="{{ url_for('toplevel.main_views.get_dataset', name=dataset.name) }}" target="_blank">
+	    <a href="{{ url_for('main_views.get_dataset', name=dataset.name) }}" target="_blank">
                 GN2 Link: {{ dataset.fullname }}
             </a>
         </td>
@@ -229,7 +229,7 @@
         {% endif %}
         {% if this_trait.symbol != None %}
 	<button type="button" class="btn btn-default" title="Write or review comments about this gene" onclick="window.open('http://gn1.genenetwork.org/webqtl/main.py?FormID=geneWiki&symbol={{ this_trait.symbol }}', '_blank')">(GN1) GeneWiki</button>
-        <button type="button" class="btn btn-default" title="Write or review comments about this gene" onclick="window.open('{{ url_for('toplevel.main_views.display_generif_page', symbol=this_trait.symbol) }}', '_blank')">(GN2) GeneWiki</button>
+        <button type="button" class="btn btn-default" title="Write or review comments about this gene" onclick="window.open('{{ url_for('main_views.display_generif_page', symbol=this_trait.symbol) }}', '_blank')">(GN2) GeneWiki</button>
         {% if dataset.group.species == "mouse" or dataset.group.species == "rat" %}
         <button type="button" class="btn btn-default" title="View SNPs and Indels" onclick="window.open('/snp_browser?first_run=true&species={{ dataset.group.species }}&gene_name={{ this_trait.symbol }}&limit_strains=on', '_blank')">SNPs</button>
         {% endif %}
diff --git a/wqflask/wqflask/templates/tool_buttons.html b/wqflask/wqflask/templates/tool_buttons.html
index 95064dbb..50e26486 100644
--- a/wqflask/wqflask/templates/tool_buttons.html
+++ b/wqflask/wqflask/templates/tool_buttons.html
@@ -32,7 +32,7 @@
 
 <button id="partial-correlations"
 	class="btn btn-primary submit_special"
-	data-url="{{url_for('toplevel.partial_correlations.partial_correlations')}}"
+	data-url="{{url_for('partial_correlations.partial_correlations')}}"
 	title="Run partial correlations with the selected traits">
     Partial Correlations
 </button>
diff --git a/wqflask/wqflask/top_level_routes.py b/wqflask/wqflask/top_level_routes.py
deleted file mode 100644
index b733d955..00000000
--- a/wqflask/wqflask/top_level_routes.py
+++ /dev/null
@@ -1,22 +0,0 @@
-"""Top-Level routes."""
-from flask import Blueprint
-
-from .api import api_bp
-from .views import main_views
-from base.trait import trait_bp
-from .user_login import ulogin_bp
-from .user_session import usession_bp
-from .collect import collections_bp
-from .partial_correlations_views import pcorrs_bp
-
-# oauth2 = Blueprint("oauth2", __name__, template_folder="templates/oauth2")
-
-toplevel = Blueprint("toplevel", __name__)
-
-toplevel.register_blueprint(trait_bp)
-toplevel.register_blueprint(pcorrs_bp)
-toplevel.register_blueprint(ulogin_bp)
-toplevel.register_blueprint(main_views)
-toplevel.register_blueprint(usession_bp)
-toplevel.register_blueprint(collections_bp)
-toplevel.register_blueprint(api_bp, url_prefix="/api")
diff --git a/wqflask/wqflask/views.py b/wqflask/wqflask/views.py
index 95019219..3ce7d0cb 100644
--- a/wqflask/wqflask/views.py
+++ b/wqflask/wqflask/views.py
@@ -876,7 +876,7 @@ def corr_compute_page():
                     })
                 jobs.run(job_id, get_setting(app, "REDIS_URL"))
 
-            return redirect(url_for("toplevel.main_views.corr_compute_page", job_id=str(job_id)))
+            return redirect(url_for("main_views.corr_compute_page", job_id=str(job_id)))
 
         job = jobs.job(
             rconn, UUID(request.args.get("job_id"))).maybe(
-- 
cgit 1.4.1