X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=conf%2Fsettings%2FClustaloLimits.xml;fp=conf%2Fsettings%2FClustaloLimits.xml;h=1367ff3447ff5fc8cb0547f362b499ddc820c8aa;hb=ff4eb72e1d1a381dc9317c80fcc1b92fc1c68d17;hp=ecb814812acc2263159b0cd207065e82f831007a;hpb=9ff87a1fc3251a6fb836a8e0e0648293e6bb731b;p=jabaws.git

diff --git a/conf/settings/ClustaloLimits.xml b/conf/settings/ClustaloLimits.xml
index ecb8148..1367ff3 100644
--- a/conf/settings/ClustaloLimits.xml
+++ b/conf/settings/ClustaloLimits.xml
@@ -1,8 +1,8 @@
 <?xml version="1.0" encoding="US-ASCII" standalone="yes"?>
 <limits>
- <runnerClassName>compbio.runner.clustal.ClustalW</runnerClassName>
+ <runnerClassName>compbio.runner.clustal.ClustalO</runnerClassName>
 	<limit isDefault="true">
-		<seqNumber>1000</seqNumber>
+		<seqNumber>2000</seqNumber>
 		<seqLength>1000</seqLength>
 	</limit>
 	<limit isDefault="false">
@@ -10,12 +10,4 @@
 		<seqNumber>30</seqNumber>
 		<seqLength>500</seqLength>
 	</limit>
-
-	<!-- Limits for presets	-->
-	<limit isDefault="false">
-		<preset>Disable gap weighting (Speed-oriented)</preset>
-		<seqNumber>1000</seqNumber>
-		<seqLength>3000</seqLength>
-	</limit>
-
 </limits>