parameters, then include it at the beginning of the command line to
ensure they are processed before any remaining arguments.
<br>
+ Typical command line execution follows the following pattern:
+ <pre>
+ jalview -open <Alignment File/URL> [additional import arguments] [export arguments]
+ </pre>
+
<table width="100%" border="1" cellspacing="0" cellpadding="0">
<tr>
<td width="27%"><div align="center">-nodisplay</div></td>
User Interface. (automatically disables questionnaire, version
and usage stats checks)</div></td>
</tr>
-
+ <tr>
+ <td><div align="center">-open FILE/URL</div></td>
+ <td><div align="left">Specify the alignment file to
+ open or process by providing additional arguments.</div></td>
+ </tr>
<tr>
<td><div align="center">-props FILE/URL</div></td>
<td><div align="left">Use the given Jalview properties
File</a> description.
</td>
</tr>
+ <tr>
+ <td>
+ <div align="center">-no-annotation</div>
+ </td>
+ <td>Do not display annotation below the alignment.
+ </td>
+ </tr>
+
<tr>
<td>
<div align="center">-tree FILE/URL</div>
</tr>
<tr>
<td><div align="center">-jvmmempc=PERCENT</div></td>
- <td><div align="left"><em>Standalone executable jar only.</em>
+ <td><div align="left"><em>Only available with standalone executable jar or jalview.bin.Launcher.</em>
Limit maximum heap size (memory) to PERCENT% of total physical memory detected.
This defaults to 90 if total physical memory can be detected.
See <a href="../memory.html">Memory usage settings for Jalview</a> for more details.
</tr>
<tr>
<td><div align="center">-jvmmemmax=MAXMEMORY</div></td>
- <td><div align="left"><em>Standalone executable jar only.</em>
+ <td><div align="left"><em>Only available with standalone executable jar or jalview.bin.Launcher.</em>
Limit maximum heap size (memory) to MAXMEMORY. MAXMEMORY can be specified in bytes, kilobytes(k), megabytes(m),
gigabytes(g) or if you're lucky enough, terabytes(t).
- This defaults to 32g if total physcial memory can be detected, or to 8g if total physical memory cannot be detected.
+ This defaults to 32g if total physical memory can be detected, or to 8g if total physical memory cannot be detected.
See <a href="../memory.html">Memory usage settings for Jalview</a> for more details.
</div>
</td>