JAL-2629 update spike branch to latest

[jalview.git] / help / html / features / chimera.html

diff --git a/help/html/features/chimera.html b/help/html/features/chimera.html
index 68ac465..e1227de 100644 (file)
--- a/help/html/features/chimera.html
+++ b/help/html/features/chimera.html
@@ -211,41 +211,32 @@
             structure in the alignment. The regions used to calculate
             the superposition will be highlighted using the 'Cartoon'
             rendering style, and the remaining data shown as a chain
-            trace.<br/><br/>
+            trace.<br />
+          <br />
         </em></li>
-        <li><strong><a name="experimental">EXPERIMENTAL FEATURES</a></strong><br/>
-          <em>
-            These are only available if the <strong>Tools&#8594;Enable
-            Experimental Features</strong> option is enabled. (Since Jalview 2.10.2)</em>
-          <ul>
-            <li><strong>Write Jalview features</strong><br /> <em>Selecting
-                this option will create new residue attributes for any
-                features currently visible in the associated alignment
-                views, allowing those positions to be selected and
-                analysed with via Chimera's 'Render by Attribute' tool
-                (found in the Tools submenu called Structure Analysis).<br />
-                <br />If you use this option, please remember to select
-                the <em>Refresh Menus</em> option in Chimera's Render by
-                Attribute dialog box in order to see the attributes
-                derived from Jalview sequence features.
-            </em><br />
-            <a href="https://issues.jalview.org/browse/JAL-2295">View
-                this function's issue in Jalview's bug tracker</a></li>
-            <li><strong>Fetch Chimera Attributes</strong><br /> <em>This
-                submenu lists available Chimera residue attributes that
-                can be imported as Jalview features on associated
-                sequences.<br />This is particularly useful for
-                transferring quantitative positional annotation. For
-                example, structure similarity for an alignment can be
-                visualised by transferring the local RMSD attributes
-                generated by Chimera's Match->Align tool onto aligned
-                sequences and displayed with a <a
-                href="featureschemes.html">Graduated feature colour
-                  scheme</a>.
-            </em><a href="https://issues.jalview.org/browse/JAL-2296">View
-                this function's issue in Jalview's bug tracker</a></li>
-          </ul></li>
-        <li><strong>Help<br>
+        <li><a name="annotxfer"><strong>Write Jalview
+              features</strong></a><br /> <em>Selecting this option will create
+            new residue attributes for any features currently visible in
+            the associated alignment views, allowing those positions to
+            be selected and analysed with via Chimera's 'Render by
+            Attribute' tool (found in the Tools submenu called Structure
+            Analysis).<br /> <br />If you use this option, please
+            remember to select the <em>Refresh Menus</em> option in
+            Chimera's Render by Attribute dialog box in order to see the
+            attributes derived from Jalview sequence features.
+        </em></li>
+        <li><strong>Fetch Chimera Attributes</strong><br /> <em>This
+            submenu lists available Chimera residue attributes that can
+            be imported as Jalview features on associated sequences.<br />This
+            is particularly useful for transferring quantitative
+            positional annotation. For example, structure similarity for
+            an alignment can be visualised by transferring the local
+            RMSD attributes generated by Chimera's Match->Align tool
+            onto aligned sequences and displayed with a <a
+            href="featureschemes.html">Graduated feature colour
+              scheme</a>. </li>
+      </ul></li>
+    <li><strong>Help<br>
     </strong>
       <ul>
         <li><strong>Chimera Help<br>