diff OPPL/oppl.xml @ 17:c9e01f86b07c draft

New tool added for merging imported ontologies (GalaxyOWLAPI and README changed and test ontologies added accordingly). Memory settings changed in all the tools XML files
author Mikel Egana Aranguren <mikel-egana-aranguren@toolshed.g2.bx.psu.edu>
date Mon, 20 Aug 2012 11:39:56 +0200
parents 68c4ae500a13
children d3616fac4ca5
line wrap: on
line diff
--- a/OPPL/oppl.xml	Thu Aug 02 09:22:57 2012 +0200
+++ b/OPPL/oppl.xml	Mon Aug 20 11:39:56 2012 +0200
@@ -9,10 +9,10 @@
 	
 	<!-- DEFAULT SETTINGS -->
 	
-	<!-- For big ontologies I use -Xmx7000M -Xms250M -DentityExpansionLimit=1000000000 If that's too much for your machine simply delete or modify at will, but since Galaxy is usually used in a server setting it makes sense to use a big chunk of memory -->
+	<!-- For big ontologies I use -Xmx3000M -Xms250M -DentityExpansionLimit=1000000000 If that's too much for your machine simply delete or modify at will, but since Galaxy is usually used in a server setting it makes sense to use a big chunk of memory -->
 
 	<command>
-		java -Xmx7000M -Xms250M -DentityExpansionLimit=1000000000 -jar ${__tool_data_path__}/shared/jars/oppl_galaxy.jar $input $reasoner $OPPL $format > $output 2>/dev/null
+		java -Xmx3000M -Xms250M -DentityExpansionLimit=1000000000 -jar ${__tool_data_path__}/shared/jars/oppl_galaxy.jar $input $reasoner $OPPL $format > $output 2>/dev/null
 	</command>
 	
 	
@@ -23,7 +23,7 @@
 	<!-- Using this setting doesn't upset the rest of the reasoners so you may as well leave it on if you plan to switch between FaCT++, Pellet and HermiT -->
 	
 	<!--<command>
-		java -Djava.library.path=${__tool_data_path__}/shared/jars/FaCT++-linux-v1.5.2/64bit -Xmx7000M -Xms250M -DentityExpansionLimit=1000000000 -jar ${__tool_data_path__}/shared/jars/oppl_galaxy.jar $input $reasoner $OPPL $format > $output 2>/dev/null
+		java -Djava.library.path=${__tool_data_path__}/shared/jars/FaCT++-linux-v1.5.2/64bit -Xmx3000M -Xms250M -DentityExpansionLimit=1000000000 -jar ${__tool_data_path__}/shared/jars/oppl_galaxy.jar $input $reasoner $OPPL $format > $output 2>/dev/null
 	</commadn>-->
 
 	
@@ -34,7 +34,7 @@
 	<!-- For debugging simply remove 2>/dev/null Or uncomment bellow (And comment the default settings above). It will fail always (Due to OPPL messages) but at least it will be informative -->
 
 	<!--<command>
-		java -Xmx7000M -Xms250M -DentityExpansionLimit=1000000000 -jar ${__tool_data_path__}/shared/jars/oppl_galaxy.jar $input $reasoner $OPPL $format > $output
+		java -Xmx3000M -Xms250M -DentityExpansionLimit=1000000000 -jar ${__tool_data_path__}/shared/jars/oppl_galaxy.jar $input $reasoner $OPPL $format > $output
 	</command>-->
 	
 	
@@ -56,7 +56,7 @@
 	<outputs>
 		<data format="text" name="output" />
 	</outputs>
-	<tests>
+	<!--<tests>
 		<test>
 			<param name="input" value="test.owl"/>
 			<param name="OPPL" value="test.oppl"/>
@@ -64,7 +64,7 @@
 			<param name="reasoner" value="Pellet"/>
 			<output name="out_file" file="test_new.owl"/>	
 		</test>
-	</tests>
+	</tests>-->
 	<help>
 
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