From: cmzmasek@gmail.com <cmzmasek@gmail.com@ca865154-3058-d1c3-3e42-d8f55a55bdbd>
Date: Thu, 29 Nov 2012 21:30:00 +0000 (+0000)
Subject: Edited wiki page RIO through web user interface.
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=97437e28abc76c7a1a182f000ecad463083c1e16;p=jalview.git

Edited wiki page RIO through web user interface.
---

diff --git a/wiki/RIO.wiki b/wiki/RIO.wiki
index 037f3e4..3d1f40b 100644
--- a/wiki/RIO.wiki
+++ b/wiki/RIO.wiki
@@ -14,7 +14,7 @@ java -Xmx2048m -cp forester.jar org.forester.application.rio [options] <gene tre
 
   * -co: cutoff for ortholog output (default: 50) 
   
-  * -t : file-name for output table
+  * -t : file-name for output table of all vs. all ortholgy support
   
   * -q : name for query (sequence/node), if this is used, `[`outfile`]` is required as well
 
@@ -24,6 +24,11 @@ java -Xmx2048m -cp forester.jar org.forester.application.rio [options] <gene tre
 
   * -cu: cutoff for ultra-paralog output (default: 50)
 
+==== Note ====
+
+Either output of all vs. all ortholgy support with -t and/or output for 
+one query sequence with -q and a  `[`outfile`]` are required.
+
 ==== Sort ====
 
   * 0: orthologies