Mercurial > repos > mikel-egana-aranguren > oppl
diff OPPL/oppl_query.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> |
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date | Mon, 20 Aug 2012 11:39:56 +0200 |
parents | 622cde484f4c |
children | d3616fac4ca5 |
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--- a/OPPL/oppl_query.xml Thu Aug 02 09:22:57 2012 +0200 +++ b/OPPL/oppl_query.xml Mon Aug 20 11:39:56 2012 +0200 @@ -7,10 +7,10 @@ <!-- 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_query.jar $ontology $reasoner $answer_format "$query" > $output 2>/dev/null + java -Xmx3000M -Xms250M -DentityExpansionLimit=1000000000 -jar ${__tool_data_path__}/shared/jars/oppl_query.jar $ontology $reasoner $answer_format "$query" > $output 2>/dev/null </command> <!-- FACT++ --> @@ -19,7 +19,7 @@ <!-- Using this setting doesn't upset the rest of the reasoners so you may as well leave it on if you plan to switch between FaCT++, Pellet and HermiT --> <!--<command> - java -Djava.library.path=${__tool_data_path__}/shared/jars/FaCT++-linux-v1.5.2/64bit -Xmx7000M -Xms250M -DentityExpansionLimit=1000000000 -jar ${__tool_data_path__}/shared/jars/oppl_query.jar $ontology $reasoner $answer_format "$query" > $output 2>/dev/null + java -Djava.library.path=${__tool_data_path__}/shared/jars/FaCT++-linux-v1.5.2/64bit -Xmx3000M -Xms250M -DentityExpansionLimit=1000000000 -jar ${__tool_data_path__}/shared/jars/oppl_query.jar $ontology $reasoner $answer_format "$query" > $output 2>/dev/null </commadn>--> @@ -40,7 +40,7 @@ <outputs> <data type="data" format="text" name="output" /> </outputs> - <tests> + <!--<tests> <test> <param name="input" value="test.owl"/> <param name="query" value="?p:OBJECTPROPERTY SELECT Transitive ?p "/> @@ -48,7 +48,7 @@ <param name="answer_format" value="URIfragment"/> <output name="out_file" file="query_result"/> </test> - </tests> + </tests>--> <help> **About OPPL-Query-Galaxy**