From: Ben Soares <b.soares@dundee.ac.uk>
Date: Tue, 19 Sep 2023 23:42:34 +0000 (+0100)
Subject: JAL-629 JAL-4265 JAL-4269 Updated help Documentation
X-Git-Tag: Release_2_11_4_0~174^2~12
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=5a8552c431758f7cb4fdca50f6d50996d13e23bc;p=jalview.git

JAL-629 JAL-4265 JAL-4269 Updated help Documentation
---

diff --git a/help/help/html/features/clarguments-basic.html b/help/help/html/features/clarguments-basic.html
index 0307494..f3c053d 100644
--- a/help/help/html/features/clarguments-basic.html
+++ b/help/help/html/features/clarguments-basic.html
@@ -477,7 +477,7 @@
   <h3><a name="scale"></a><code>--scale</code></h3>
 
   <p>
-  We can increase the size of the PNG image by a factor of <em>S</em> by following the <code>--image</code> argument with a <code>--scale <em>S</em></code> argument and value.  The value doesn't have to be an integer and should be given as an integer or floating point formatted number, e.g.
+  We can increase the size of the PNG image by a factor of <em>S</em> by following the <code>--image</code> or <code>--structureimage</code> argument with a <code>--scale <em>S</em></code> argument and value.  The value doesn't have to be an integer and should be given as an integer or floating point formatted number, e.g.
   <pre>
   jalview --open examples/uniref50.fa --colour gecos-ocean --image mypic.png --scale 5.5 --headless
   </pre>
@@ -506,7 +506,7 @@
   </p>
 
   <p>
-  You can specify two or all of <code>--scale</code>, <code>--width</code> and <code>--height</code> as limits to the size of the image (think of one or two bounding boxes) and the one which produces the smallest scale of image is used.  You can also specify each of these as sub-value modifiers to the <code>--image</code> value:
+  You can specify two or all of <code>--scale</code>, <code>--width</code> and <code>--height</code> as limits to the size of the image (think of one or two bounding boxes) and the one which produces the smallest scale of image is used.  You can also specify each of these as sub-value modifiers to the <code>--image</code> or <code>--structureimage</code> value:
   <pre>
   jalview --headless --open https://www.ebi.ac.uk/interpro/api/entry/pfam/PF03760/?annotation=alignment%3Aseed --noshowannotations --colour gecos-flower --image [scale=0.25,width=320,height=240]thumbnail.png
   </pre>
@@ -690,7 +690,7 @@
   </p>
 
 
-  <h2><a name="alloutputwildcard"></a>The all output wildcard: <code>--output "*.ext"</code>,  <code>--image "*.ext"</code></h2>
+  <h2><a name="alloutputwildcard"></a>The all output wildcard: <code>--output "*/*.ext"</code>,  <code>--image "*/*.ext"</code></h2>
 
   <p>
   Purely as an intuitive syntactic sweetener, you can use the <code>--output</code> wildcard <code>*</code> in two places as part of an output path and filename.