X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2Freleases.html;h=4c72658d6b7ac8bdc490a2fda8c4998e24b39ab5;hb=7ae11f7f7f00549c6fb3af9ee193dc103a3c8de8;hp=7c46854e161e524ea4d1657c8de23fc2414a7387;hpb=ba5cebdea1dd8a54d241871017887b3cbcc1a87b;p=jalview.git

diff --git a/help/help/html/releases.html b/help/help/html/releases.html
index 7c46854..4c72658 100755
--- a/help/help/html/releases.html
+++ b/help/help/html/releases.html
@@ -55,10 +55,118 @@ li:before {
       <th><em>New Features</em></th>
       <th><em>Issues Resolved</em></th>
     </tr>
+    <td width="60" align="center" nowrap><strong><a
+        id="Jalview.2.11.1">2.11.1</a><a id="Jalview.2.11.1.4">.4</a><br />
+        <em>08/02/2021</em></strong></td>
+    <td align="left" valign="top"><em>Improved control of
+        Jalview's use of network services</em>
+      <ul>
+        <li>
+          <!-- JAL-3814 -->New .jalview_properties token controlling
+          launch of the news browser (like -nonews argument)
+        </li>
+        <li>
+          <!-- JAL-3813 -->New .jalview_properties token controlling
+          download of linkout URLs from
+          www.jalview.org/services/identifiers
+        </li>
+        <li>
+          <!-- JAL-3812 -->New .jalview_properties token controlling
+          download of BIOJSHTML templates
+        </li>
+        <li>
+          <!-- JAL-3811 -->New 'Discover Web Services' option to trigger
+          a one off JABAWS discovery if autodiscovery was disabled
+        </li>
+      </ul></td>
+    <td align="left" valign="top">
+      <ul>
+        <li></li>
+      </ul>
+    </td>
+    </tr>
+    <tr>
+      <td width="60" align="center" nowrap><strong><a
+          id="Jalview.2.11.1">2.11.1</a><a id="Jalview.2.11.1.3">.3</a><br />
+          <em>29/10/2020</em></strong></td>
+      <td align="left" valign="top">
+        <ul>
+
+        </ul>
+      </td>
+      <td align="left" valign="top">
+        <ul>
+          <li>
+            <!-- JAL-3765 -->Find doesn't always highlight all matching
+            positions in a sequence (bug introduced in 2.11.1.2)
+          </li>
+          <li>
+            <!-- JAL-3760 -->Alignments containing one or more protein
+            sequences can be classed as nucleotide
+          </li>
+          <li>
+            <!-- JAL-3748 -->CDS alignment doesn't match original CDS
+            sequences after alignment of protein products (known defect
+            first reported for 2.11.1.0)
+          </li>
+          <li>
+            <!-- JAL-3725 -->No tooltip or popup menu for genomic
+            features outwith CDS shown overlaid on protein
+          </li>
+          <li>
+            <!-- JAL-3751 -->Overlapping CDS in ENA accessions are not
+            correctly mapped by Jalview (e.g. affects viral CDS with
+            ribosomal slippage, since 2.9.0)
+          </li>
+          <li>
+            <!-- JAL-3763 -->Spliced transcript CDS sequences don't show
+            CDS features
+          </li>
+          <li>
+            <!-- JAL-3700 -->Selections in CDS sequence panel don't
+            always select corresponding protein sequences
+          </li>
+          <li>
+            <!-- JAL-3759 --> <em>Make groups from selection</em> for a
+            column selection doesn't always ignore hidden columns
+          </li>
+        </ul> <em>Installer</em>
+        <ul>
+          <li>
+            <!-- JAL-3611 -->Space character in Jalview install path on
+            Windows prevents install4j launching getdown
+          </li>
+        </ul> <em>Development</em>
+        <ul>
+          <li>
+            <!-- JAL-3248 -->Fixed typos and specified compatible gradle
+            version numbers in doc/building.md
+          </li>
+        </ul>
+      </td>
+    </tr>
+    <tr>
+      <td width="60" align="center" nowrap><strong><a
+          id="Jalview.2.11.1">2.11.1</a><a id="Jalview.2.11.1.2">.2</a><br />
+          <em>25/09/2020</em></strong></td>
+      <td align="left" valign="top">
+        <ul>
+        </ul>
+      </td>
+      <td align="left" valign="top">
+        <ul>
+          <li>
+            <!-- JAL-3757 -->Fresh install of Jalview 2.11.1.1 reports
+            "Encountered problems opening
+            https://www.jalview.org/examples/exampleFile_2_7.jvp"
+          </li>
+        </ul>
+      </td>
+    </tr>
     <tr>
       <td width="60" align="center" nowrap><strong><a
           id="Jalview.2.11.1">2.11.1</a><a id="Jalview.2.11.1.1">.1</a><br />
-          <em>15/09/2020</em></strong></td>
+          <em>17/09/2020</em></strong></td>
       <td align="left" valign="top">
         <ul>
           <li>
@@ -185,6 +293,14 @@ li:before {
             file again, and if that fails, delete the original file and
             save in place.)
           </li>
+          <li>
+            <!-- JAL-3750 -->Cannot process alignments from HTTPS urls
+            via command line
+          </li>
+          <li>
+            <!-- JAL-3741 -->References to http://www.jalview.org in
+            program and documentation
+          </li>
         </ul> <em>Launching Jalview</em>
         <ul>
           <li>
@@ -206,6 +322,12 @@ li:before {
         </ul> <em>New Known defects</em>
         <ul>
           <li>
+            <!-- JAL-3748 -->CDS shown in result of submitting proteins
+            in a CDS/Protein alignment to a web service is wrong when
+            proteins share a common transcript sequence (e.g.
+            genome of RNA viruses)
+          </li>
+          <li>
             <!-- JAL-3576 -->Co-located features exported and re-imported
             are ordered differently when shown on alignment and in
             tooltips. (Also affects v2.11.1.0)
@@ -223,6 +345,11 @@ li:before {
             <!-- JAL-3127 -->Sequence ID colourscheme not re-applied
             when alignment view restored from project (since Jalview 2.11.0)
           </li>
+          <li>
+            <!-- JAL-3749 -->Duplicate CDS sequences are generated when
+            protein products for certain ENA records are repeatedly
+            shown via Calculate-&gt;Show Cross Refs
+          </li>
         </ul>
       </td>
     </tr>