help documentation for Jalview 2.7

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

diff --git a/help/html/features/clarguments.html b/help/html/features/clarguments.html
index 9ca64a6..88657f8 100644 (file)
--- a/help/html/features/clarguments.html
+++ b/help/html/features/clarguments.html
@@ -30,12 +30,12 @@
  </tr>
 
  <tr> 
- <td><div align="center">-props FILE</div></td>
+ <td><div align="center">-props FILE/URL</div></td>
  <td><div align="left">Use the given Jalview properties file instead 
  of users default.</div></td>
  </tr>
  <tr> 
- <td><div align="center">-features FILE</div></td>
+ <td><div align="center">-features FILE/URL</div></td>
  <td><div align="left"> 
  <p>Use the given file to add sequence features to an alignment. 
  See <a href="featuresFormat.html" target="NEW">Features 
@@ -55,7 +55,7 @@
  </tr>
        <tr>
                <td>
-               <div align="center">-annotations FILE</div>
+               <div align="center">-annotations FILE/URL</div>
                </td>
                <td>Add precalculated annotations to the alignment. See <a
                        href="annotationsFormat.html" target="NEW">Annotation File</a>
@@ -63,7 +63,7 @@
        </tr>
        <tr>
                <td>
-               <div align="center">-tree FILE</div>
+               <div align="center">-tree FILE/URL</div>
                <td>
                <div align="left">Load the given newick format tree file onto
                the alignment</div>
@@ -117,7 +117,7 @@
        </tr>
        <tr>
                <td>
-               <div align="center">-groovy FILE</div>
+               <div align="center">-groovy FILE/URL</div>
                <td>
                <div align="left">Execute groovy script in FILE (where FILE may be 'STDIN' to read from the standard input) after all other
                arguments have been processed</div>
@@ -125,7 +125,7 @@
        </tr>
        <tr>
        <td>
-               <div align="center">-vdoc VAMSAS DOCUMENT FILE or URL</div>
+               <div align="center">-vdoc VAMSAS DOCUMENT FILE/URL</div>
                <td>
                <div align="left">Import the given vamsas document into a new session.<br><em>New in 2.5</em></div>
                </td>
@@ -139,14 +139,6 @@
        </tr>
        <tr>
                <td>
-               <div align="center">-groovy FILE</div>
-               <td>
-               <div align="left">Execute groovy script in FILE (where FILE may be 'STDIN' to read from the standard input) after all other
-               arguments have been processed</div>
-               </td>
-       </tr>
-       <tr>
-               <td>
                <div align="center">-fasta FILE</div>
                </td>