JAL-629 tidying the help docs

diff --git a/help/help/helpTOC.xml b/help/help/helpTOC.xml
index 1cdf4d3..433139d 100755 (executable)
--- a/help/help/helpTOC.xml
+++ b/help/help/helpTOC.xml
@@ -177,8 +177,8 @@
                </tocitem>
                <tocitem text="Memory Settings" target="memory" expand="false"/>
                <tocitem text="Jalview Launch Files" target="jvlfiles" expand="false"/>
+               <tocitem text="Privacy" target="privacy" />
     </tocitem>
-       <tocitem text="Privacy" target="privacy" />
        <tocitem text="Useful information" expand="true">
                <tocitem text="Amino Acid Table" target="aminoAcids" />
                <tocitem text="Amino Acid Properties" target="aaProperties" />

diff --git a/help/help/html/memory.html b/help/help/html/memory.html
index ec57530..a326575 100755 (executable)
--- a/help/help/html/memory.html
+++ b/help/help/html/memory.html
@@ -74,6 +74,11 @@
       with a different percentage of physical memory available is to
       adjust your user preferences via the <a
       ref="preferences.html#startup">Startup Preferences</a> panel.</li>
+    <li>
+      <em><code>jalview</code> command line launch</em>
+      <br/>
+      When starting Jalview from a <a href="features/commandline.html">command line launch</a> you can use the memory setting arguments <a href="features/clarguments.html#jvmmemmax"><code>--jvmmemmax=MAXMEMORY</code></a> and <a href="features/clarguments.html#jvmmempc"><code>--jvmmempc=PERCENT</code></a>.  <code>MAXMEMORY</code> should be an integer optionally followed by one of <code>k</code>, <code>m</code>, <code>g</code>, <code>t</code>.  <code>PERCENT</code> should be an integer between 1 and 100.
+    </li>
     <li><em><font size="3">JVL file</font></em> <br />Another way
       to adjust launch settings is with a text file with extension <em>.jvl</em>
       and a single line to specify the percentage of memory you wish