<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.1)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
* Jalview is free software: you can redistribute it and/or
* modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
*
* Jalview is distributed in the hope that it will be useful, but
* WITHOUT ANY WARRANTY; without even the implied warranty
* of MERCHANTABILITY or FITNESS FOR A PARTICULAR
* PURPOSE. See the GNU General Public License for more details.
*
- * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
* The Jalview Authors are detailed in the 'AUTHORS' file.
--->
+ -->
<title>Jalview Command Line Arguments
</title>
<body>
</td>
<td>Set the colourscheme for the alignment. This can be any of
the built-in colourschemes, a name of a predefined colourscheme
- (defined in the jalview properties file), or an 'inline' colourscheme
+ (defined in the Jalview properties file), or an 'inline' colourscheme
(see the applet's colour parameter for more information).</td>
</tr>
<tr>
arguments have been processed</div>
</td>
</tr>
+ <tr>
+ <td>
+ <div align="center">-jabaws URL</div>
+ <td>
+ <div align="left">Specify the URL of the preferred JABAWS server</div>
+ </td>
+ </tr>
<tr>
<td>
<div align="center">-vdoc VAMSAS DOCUMENT FILE/URL</div>
<td><div align="center">-blc FILE</div></td>
<td><div align="left">Create alignment file FILE in BLC format.</div></td>
</tr>
+ <tr>
+ <td><div align="center">-json FILE</div></td>
+ <td><div align="left">Create alignment file FILE in JSON format.</div></td>
+ </tr>
<tr>
<td><div align="center">-jalview FILE</div></td>
<td><div align="center">-eps FILE</div></td>
<td><div align="left">Create EPS file FILE from alignment.</div></td>
</tr>
+ <tr>
+ <td><div align="center">-svg FILE</div></td>
+ <td><div align="left">Create Scalable Vector Graphics file FILE from alignment.</div></td>
+ </tr>
</table>
</body>
</html>