adjusted migration

Initial bayer app

Show Pack Classification

Adjusted docker compose to bayer specifics

Adjusted Dockerfile for Bayer

Adding secret flags to group, add secret pools to packages

Adjusted View for Package creation

Prep configs, added Package Create Modal

wip

More on PES

wip

wip

Wip

minor

PW interactions

API PES

wip

Make Select Widget reflect required

make required generallay available

Update UI if pathway mode is set to build

Added ais

circle adjustments

Initial Zoom, fix AD Creation

wip

auth log, bb4g fix

missing import

Added viz hint if PES is part of reaction

Add Edge check for pes

flip boolean

...

pes

Added extra

...

In / Out Edges Viz, Submitting Button Text

...

templates/components/navbar.html

@@ -35,6 +35,7 @@
             <use href="{% static "/images/logo-name.svg" %}#ep-logo-name" />
           </svg>
         </a>
+        <img src="{% static 'images/bayer-logo.svg' %}" width="40">
       </div>
 
       {% if not public_mode %}
@@ -88,12 +89,23 @@
                   >Scenario</a
                 >
               </li>
+                <hr/>
+              <li>
+                <a href="{{ meta.server_url }}/group" id="scenarioLink"
+                  >Group</a
+                >
+              </li>
             </ul>
           </div>
         </div>
       {% endif %}
 
       <div class="navbar-end">
+        {% if meta.url_contains_package and meta.current_package.get_classification_level_display == "Restricted" %}
+          <img src="{% static 'images/restricted_mid.png' %}" width="200">
+        {% elif meta.url_contains_package and meta.current_package.get_classification_level_display == "Secret" %}
+          <img src="{% static 'images/secret_mid.png' %}" width="120">
+        {% endif %}
         {% if not public_mode %}
           <a id="search-trigger" role="button" class="cursor-pointer">
             <div

templates/modals/objects/add_pathway_edge_modal.html

@@ -5,6 +5,7 @@
   x-data="{
     isSubmitting: false,
     reactionImageUrl: '',
+    pes: false,
 
     reset() {
       this.isSubmitting = false;
@@ -15,20 +16,30 @@
       const substratesSelect = document.getElementById('add_pathway_edge_substrates');
       const productsSelect = document.getElementById('add_pathway_edge_products');
 
+      const pesLinks = [];
+
       const substrates = [];
       for (const option of substratesSelect.selectedOptions) {
         substrates.push(option.dataset.smiles);
+        if (option.dataset.pes === 'true') {
+          pesLinks.push(option.dataset.pes);
+        }
       }
 
       const products = [];
       for (const option of productsSelect.selectedOptions) {
         products.push(option.dataset.smiles);
+        if (option.dataset.pes === 'true') {
+          pesLinks.push(option.dataset.pes);
+        }
       }
 
       if (substrates.length > 0 && products.length > 0) {
         const reaction = substrates.join('.') + '>>' + products.join('.');
         this.reactionImageUrl = '{% url "depict" %}?smirks=' + encodeURIComponent(reaction);
+        this.pes = pesLinks.length > 0;
       } else {
+        this.pes = false;
         this.reactionImageUrl = '';
       }
     },
@@ -106,6 +117,7 @@
                 {% for n in pathway.nodes %}
                   <option
                     data-smiles="{{ n.default_node_label.smiles }}"
+                    data-pes="{% if n.default_node_label.pes_link %}true{% else %}false{% endif %}"
                     value="{{ n.url }}"
                   >
                     {{ n.default_node_label.name|safe }}
@@ -132,6 +144,7 @@
                 {% for n in pathway.nodes %}
                   <option
                     data-smiles="{{ n.default_node_label.smiles }}"
+                    data-pes="{% if n.default_node_label.pes_link %}true{% else %}false{% endif %}"
                     value="{{ n.url }}"
                   >
                     {{ n.default_node_label.name|safe }}
@@ -144,6 +157,9 @@
 
         <div class="mb-3" x-show="reactionImageUrl" x-cloak>
           <img :src="reactionImageUrl" class="w-full" alt="Reaction preview" />
+          <div x-show="pes">
+            <span class='alert alert-info alert-soft'>The reaction contains a partially elucidated structure!</br>For visualization the representative structure is used. The pathway itself will show the actual partially elucidated structure.</span>
+          </div>
         </div>
       </form>
     </div>

templates/objects/edge.html

@@ -82,6 +82,9 @@
       <div class="collapse-content">
         <div class="flex justify-center">{{ edge.edge_label.as_svg|safe }}</div>
       </div>
+      {% if edge.edge_label.contains_pes %}
+        <span class='alert alert-info alert-soft'>The reaction contains a partially elucidated structure!</br>For visualization the representative structure is used. The pathway itself will show the actual partially elucidated structure.</span>
+      {% endif %}
     </div>
 
     <!-- Reaction Description -->

templates/objects/reaction.html

@@ -79,6 +79,9 @@
       <div class="collapse-content">
         <div class="flex justify-center">{{ reaction.as_svg|safe }}</div>
       </div>
+      {% if reaction.contains_pes %}
+        <span class='alert alert-info alert-soft'>The reaction contains a partially elucidated structure!</br>For visualization the representative structure is used. The pathway itself will show the actual partially elucidated structure.</span>
+      {% endif %}
     </div>
 
     <!-- Reaction Description -->

templates/static/login_base.html

@@ -110,8 +110,6 @@
           <div
             class="text-base-content/50 flex items-center justify-center space-x-6 text-sm"
           >
-            <a href="/legal" class="link link-hover">Legal</a>
-            <span class="text-base-content/30">•</span>
             <a href="/terms" class="link link-hover">Terms of Use</a>
             <span class="text-base-content/30">•</span>
             <a href="/privacy" class="link link-hover">Privacy Policy</a>