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[DL-Learner SVN] SF.net SVN: dl-learner: [600] trunk
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From: <ku...@us...> - 2008-02-18 14:27:09
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Revision: 600
http://dl-learner.svn.sourceforge.net/dl-learner/?rev=600&view=rev
Author: kurzum
Date: 2008-02-18 06:26:58 -0800 (Mon, 18 Feb 2008)
Log Message:
-----------
fixed examples (header lymphography, some readmes)
Modified Paths:
--------------
trunk/examples/lymphography/lymphography_Class1.conf
trunk/examples/lymphography/lymphography_Class2.conf
trunk/examples/lymphography/lymphography_Class3.conf
trunk/examples/lymphography/lymphography_Class4.conf
trunk/src/dl-learner/org/dllearner/kb/sparql/SparqlQuery.java
Added Paths:
-----------
trunk/examples/sparql/README.txt
trunk/examples/sparql/roles_notworking/README.txt
Removed Paths:
-------------
trunk/examples/sparql/config.owl
Modified: trunk/examples/lymphography/lymphography_Class1.conf
===================================================================
--- trunk/examples/lymphography/lymphography_Class1.conf 2008-02-18 12:35:49 UTC (rev 599)
+++ trunk/examples/lymphography/lymphography_Class1.conf 2008-02-18 14:26:58 UTC (rev 600)
@@ -1,4 +1,31 @@
+/*
+Converted form the UCI Machine Learning Repository at:
+http://archive.ics.uci.edu/ml/datasets/Lymphography
+Files:
+lymphography_Class1.conf
+lymphography_Class2.conf
+lymphography_Class3.conf
+lymphography_Class4.conf
+
+A solution ist found relatively fast for example 1 and 4.
+Because of the increasing length of concepts for example 2 and 4,
+it will need a lot of time to find a solution, in case it exists at all.
+Mainly used as a test case for improving the algorithms (example 4 uses
+a new experimental version of the refinement algorithm)
+
+
+*/
+
+
+reasoner = dig;
+//reasoner = fastRetrieval;
+
+algorithm = refinement;
+//refinement.heuristic = flexible;
+//algorithm = refexamples;
+
+
refinement.ignoredConcepts = {
"http://www.example.org/lymphography#Target1_NormalFind",
"http://www.example.org/lymphography#Target2_Metastases",
Modified: trunk/examples/lymphography/lymphography_Class2.conf
===================================================================
--- trunk/examples/lymphography/lymphography_Class2.conf 2008-02-18 12:35:49 UTC (rev 599)
+++ trunk/examples/lymphography/lymphography_Class2.conf 2008-02-18 14:26:58 UTC (rev 600)
@@ -1,3 +1,28 @@
+/*
+Converted form the UCI Machine Learning Repository at:
+http://archive.ics.uci.edu/ml/datasets/Lymphography
+
+Files:
+lymphography_Class1.conf
+lymphography_Class2.conf
+lymphography_Class3.conf
+lymphography_Class4.conf
+
+A solution ist found relatively fast for example 1 and 4.
+Because of the increasing length of concepts for example 2 and 4,
+it will need a lot of time to find a solution, in case it exists at all.
+Mainly used as a test case for improving the algorithms (example 4 uses
+a new experimental version of the refinement algorithm)
+
+
+*/
+reasoner = dig;
+//reasoner = fastRetrieval;
+
+algorithm = refinement;
+//refinement.heuristic = flexible;
+//algorithm = refexamples;
+
refinement.ignoredConcepts = {
"http://www.example.org/lymphography#Target1_NormalFind",
"http://www.example.org/lymphography#Target2_Metastases",
@@ -6,6 +31,8 @@
};
+
+
refinement.useAllConstructor = false;
refinement.useExistsConstructor = true;
refinement.useNegation = false;
Modified: trunk/examples/lymphography/lymphography_Class3.conf
===================================================================
--- trunk/examples/lymphography/lymphography_Class3.conf 2008-02-18 12:35:49 UTC (rev 599)
+++ trunk/examples/lymphography/lymphography_Class3.conf 2008-02-18 14:26:58 UTC (rev 600)
@@ -1,3 +1,31 @@
+/*
+Converted form the UCI Machine Learning Repository at:
+http://archive.ics.uci.edu/ml/datasets/Lymphography
+
+Files:
+lymphography_Class1.conf
+lymphography_Class2.conf
+lymphography_Class3.conf
+lymphography_Class4.conf
+
+A solution ist found relatively fast for example 1 and 4.
+Because of the increasing length of concepts for example 2 and 4,
+it will need a lot of time to find a solution, in case it exists at all.
+Mainly used as a test case for improving the algorithms (example 4 uses
+a new experimental version of the refinement algorithm)
+
+
+*/
+
+
+
+reasoner = dig;
+//reasoner = fastRetrieval;
+
+algorithm = refinement;
+//refinement.heuristic = flexible;
+//algorithm = refexamples;
+
refinement.ignoredConcepts = {
"http://www.example.org/lymphography#Target1_NormalFind",
"http://www.example.org/lymphography#Target2_Metastases",
Modified: trunk/examples/lymphography/lymphography_Class4.conf
===================================================================
--- trunk/examples/lymphography/lymphography_Class4.conf 2008-02-18 12:35:49 UTC (rev 599)
+++ trunk/examples/lymphography/lymphography_Class4.conf 2008-02-18 14:26:58 UTC (rev 600)
@@ -1,6 +1,28 @@
+/*
+Converted form the UCI Machine Learning Repository at:
+http://archive.ics.uci.edu/ml/datasets/Lymphography
+Files:
+lymphography_Class1.conf
+lymphography_Class2.conf
+lymphography_Class3.conf
+lymphography_Class4.conf
+
+A solution ist found relatively fast for example 1 and 4.
+Because of the increasing length of concepts for example 2 and 4,
+it will need a lot of time to find a solution, in case it exists at all.
+Mainly used as a test case for improving the algorithms (example 4 uses
+a new experimental version of the refinement algorithm)
+
+
+*/
+
+
+//reasoner = dig;
reasoner = fastRetrieval;
+//algorithm = refinement;
+//refinement.heuristic = flexible;
algorithm = refexamples;
refexamples.ignoredConcepts = {
Added: trunk/examples/sparql/README.txt
===================================================================
--- trunk/examples/sparql/README.txt (rev 0)
+++ trunk/examples/sparql/README.txt 2008-02-18 14:26:58 UTC (rev 600)
@@ -0,0 +1,7 @@
+
+Note: DBpedia is always subject to change, solutions will change over time
+
+After using the SPARQL Component, a n-triple file is created at:
+examples/../cache/ or root/cache
+Which contains the used knowledge base.
+
Deleted: trunk/examples/sparql/config.owl
===================================================================
--- trunk/examples/sparql/config.owl 2008-02-18 12:35:49 UTC (rev 599)
+++ trunk/examples/sparql/config.owl 2008-02-18 14:26:58 UTC (rev 600)
@@ -1,172 +0,0 @@
-<?xml version="1.0"?>
-<!DOCTYPE rdf:RDF [
- <!ENTITY config "http://www.extraction.org/config#">
- <!ENTITY owl "http://www.w3.org/2002/07/owl#">
- <!ENTITY rdf "http://www.w3.org/1999/02/22-rdf-syntax-ns#">
- <!ENTITY rdfs "http://www.w3.org/2000/01/rdf-schema#">
- <!ENTITY xsd "http://www.w3.org/2001/XMLSchema#">
-]>
-<rdf:RDF xml:base="http://www.extraction.org/config" xmlns:config="http://www.extraction.org/config#" xmlns:owl="http://www.w3.org/2002/07/owl#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#">
- <!-- Ontology Information -->
- <owl:Ontology rdf:about="">
- <owl:versionInfo xml:lang="en">version 0.1</owl:versionInfo>
- </owl:Ontology>
- <!-- Classes -->
- <owl:Class rdf:about="#Configuration"/>
- <owl:Class rdf:about="#FilterSet"/>
- <owl:Class rdf:about="#GETParameter"/>
- <owl:Class rdf:about="#ObjectFilterSet">
- <rdfs:subClassOf rdf:resource="#FilterSet"/>
- </owl:Class>
- <owl:Class rdf:about="#PredicateFilterSet">
- <rdfs:subClassOf rdf:resource="#FilterSet"/>
- </owl:Class>
- <owl:Class rdf:about="#SparqlEndpoint"/>
- <owl:Class rdf:about="#TypedQuery"/>
- <!-- Annotation Properties -->
- <owl:AnnotationProperty rdf:about="&rdfs;comment"/>
- <owl:AnnotationProperty rdf:about="&owl;versionInfo"/>
- <!-- Datatype Properties -->
- <owl:DatatypeProperty rdf:about="#filtersURI">
- <rdfs:domain rdf:resource="#ObjectFilterSet"/>
- <rdfs:domain rdf:resource="#PredicateFilterSet"/>
- </owl:DatatypeProperty>
- <owl:DatatypeProperty rdf:about="#hasAfterGET">
- <rdfs:domain rdf:resource="#SparqlEndpoint"/>
- </owl:DatatypeProperty>
- <owl:DatatypeProperty rdf:about="#hasHost">
- <rdfs:domain rdf:resource="#SparqlEndpoint"/>
- </owl:DatatypeProperty>
- <owl:DatatypeProperty rdf:about="#hasMode">
- <rdfs:domain rdf:resource="#TypedQuery"/>
- </owl:DatatypeProperty>
- <owl:DatatypeProperty rdf:about="#hasParameterContent">
- <rdfs:domain rdf:resource="#GETParameter"/>
- </owl:DatatypeProperty>
- <owl:DatatypeProperty rdf:about="#hasParameterName">
- <rdfs:domain rdf:resource="#GETParameter"/>
- </owl:DatatypeProperty>
- <owl:DatatypeProperty rdf:about="#hasPort">
- <rdfs:domain rdf:resource="#SparqlEndpoint"/>
- </owl:DatatypeProperty>
- <owl:DatatypeProperty rdf:about="#hasQueryParameter">
- <rdfs:domain rdf:resource="#SparqlEndpoint"/>
- </owl:DatatypeProperty>
- <owl:DatatypeProperty rdf:about="#hasRecursionDepth">
- <rdfs:domain rdf:resource="#Configuration"/>
- </owl:DatatypeProperty>
- <owl:DatatypeProperty rdf:about="#usesLiterals">
- <rdfs:domain rdf:resource="#TypedQuery"/>
- </owl:DatatypeProperty>
- <!-- Object Properties -->
- <owl:ObjectProperty rdf:about="#hasGETParameter">
- <rdfs:domain rdf:resource="#SparqlEndpoint"/>
- <rdfs:range rdf:resource="#GETParameter"/>
- </owl:ObjectProperty>
- <owl:ObjectProperty rdf:about="#hasObjectFilterSet">
- <rdfs:domain rdf:resource="#TypedQuery"/>
- <rdfs:range rdf:resource="#ObjectFilterSet"/>
- </owl:ObjectProperty>
- <owl:ObjectProperty rdf:about="#hasPredicateFilterSet">
- <rdfs:domain rdf:resource="#TypedQuery"/>
- <rdfs:range rdf:resource="#PredicateFilterSet"/>
- </owl:ObjectProperty>
- <owl:ObjectProperty rdf:about="#hasSparqlEndpoint">
- <rdfs:domain rdf:resource="#Configuration"/>
- <rdfs:range rdf:resource="#SparqlEndpoint"/>
- </owl:ObjectProperty>
- <owl:ObjectProperty rdf:about="#hasTypedQuery">
- <rdfs:domain rdf:resource="#Configuration"/>
- <rdfs:range rdf:resource="#TypedQuery"/>
- </owl:ObjectProperty>
- <!-- Instances -->
- <config:SparqlEndpoint rdf:about="#dbpediaEndpoint">
- <config:hasAfterGET rdf:datatype="&xsd;string">/sparql</config:hasAfterGET>
- <config:hasGETParameter rdf:resource="#defaultgraphuri"/>
- <config:hasGETParameter rdf:resource="#format"/>
- <config:hasHost rdf:datatype="&xsd;string">dbpedia.openlinksw.com</config:hasHost>
- <config:hasPort rdf:datatype="&xsd;string">80</config:hasPort>
- <config:hasQueryParameter rdf:datatype="&xsd;string">query</config:hasQueryParameter>
- <config:hasURL>dbpedia.openlinksw.com:80/sparql</config:hasURL>
- </config:SparqlEndpoint>
- <config:ObjectFilterSet rdf:about="#dbpediaGeneralObjectFilter">
- <config:filtersURI rdf:datatype="&xsd;string">http://dbpedia.org/resource/Category:Articles_</config:filtersURI>
- <config:filtersURI rdf:datatype="&xsd;string">http://dbpedia.org/resource/Category:Wikipedia_</config:filtersURI>
- <config:filtersURI rdf:datatype="&xsd;string">http://upload.wikimedia.org/wikipedia/commons</config:filtersURI>
- <config:filtersURI rdf:datatype="&xsd;string">http://upload.wikimedia.org/wikipedia</config:filtersURI>
- <config:filtersURI rdf:datatype="&xsd;string">http://www.geonames.org</config:filtersURI>
- <config:filtersURI rdf:datatype="&xsd;string">http://www.w3.org/2006/03/wn/wn20/instances/synset</config:filtersURI>
- <config:filtersURI rdf:datatype="&xsd;string">http://www4.wiwiss.fu-berlin.de/flickrwrappr</config:filtersURI>
- </config:ObjectFilterSet>
- <config:PredicateFilterSet rdf:about="#dbpediaGeneralPredicateFilter">
- <config:filtersURI rdf:datatype="&xsd;string">http://dbpedia.org/property/reference</config:filtersURI>
- <config:filtersURI rdf:datatype="&xsd;string">http://dbpedia.org/property/website</config:filtersURI>
- <config:filtersURI rdf:datatype="&xsd;string">http://dbpedia.org/property/wikipage-</config:filtersURI>
- </config:PredicateFilterSet>
- <config:TypedQuery rdf:about="#dbpediaYago">
- <config:hasMode rdf:datatype="&xsd;string">forbid</config:hasMode>
- <config:hasObjectFilterSet rdf:resource="#dbpediaGeneralObjectFilter"/>
- <config:hasObjectFilterSet rdf:resource="#foafObjectFilter"/>
- <config:hasObjectFilterSet rdf:resource="#yagoObjectFilter"/>
- <config:hasPredicateFilterSet rdf:resource="#dbpediaGeneralPredicateFilter"/>
- <config:hasPredicateFilterSet rdf:resource="#foafPredicateFilter"/>
- <config:hasPredicateFilterSet rdf:resource="#sameAsFilter"/>
- <config:hasPredicateFilterSet rdf:resource="#yagoPredicateFilter"/>
- <config:usesLiterals rdf:datatype="&xsd;string">false</config:usesLiterals>
- </config:TypedQuery>
- <config:Configuration rdf:about="#dbpediatest" rdfs:comment="for first test">
- <config:hasRecursionDepth rdf:datatype="&xsd;string">2</config:hasRecursionDepth>
- <config:hasSparqlEndpoint rdf:resource="#dbpediaEndpoint"/>
- <config:hasTypedQuery rdf:resource="#dbpediaYago"/>
- </config:Configuration>
- <config:GETParameter rdf:about="#defaultgraphuri">
- <config:hasParameterContent rdf:datatype="&xsd;string">http://dbpedia.org</config:hasParameterContent>
- <config:hasParameterName rdf:datatype="&xsd;string">default-graph-uri</config:hasParameterName>
- </config:GETParameter>
- <config:ObjectFilterSet rdf:about="#foafObjectFilter">
- <config:filtersURI rdf:datatype="&xsd;string">http://xmlns.com/foaf/0.1/</config:filtersURI>
- </config:ObjectFilterSet>
- <config:PredicateFilterSet rdf:about="#foafPredicateFilter">
- <config:filtersURI rdf:datatype="&xsd;string">http://xmlns.com/foaf/0.1/</config:filtersURI>
- </config:PredicateFilterSet>
- <config:GETParameter rdf:about="#format">
- <config:hasParameterContent rdf:datatype="&xsd;string">application/sparql-results.xml</config:hasParameterContent>
- <config:hasParameterName rdf:datatype="&xsd;string">format</config:hasParameterName>
- </config:GETParameter>
- <config:Configuration rdf:about="#localjoseki">
- <config:hasRecursionDepth rdf:datatype="&xsd;string">2</config:hasRecursionDepth>
- <config:hasSparqlEndpoint rdf:resource="#localjosekiendpoint"/>
- <config:hasTypedQuery rdf:resource="#localjosekitypedquery"/>
- </config:Configuration>
- <config:SparqlEndpoint rdf:about="#localjosekiendpoint">
- <config:hasAfterGET rdf:datatype="&xsd;string">/books</config:hasAfterGET>
- <config:hasHost rdf:datatype="http://www.w3.org/2001/XMLSchema#string">localhost</config:hasHost>
- <config:hasPort rdf:datatype="&xsd;string">2020</config:hasPort>
- <config:hasQueryParameter rdf:datatype="&xsd;string">query</config:hasQueryParameter>
- <config:hasURL>localhost:2020/books</config:hasURL>
- </config:SparqlEndpoint>
- <config:TypedQuery rdf:about="#localjosekitypedquery">
- <config:hasMode rdf:datatype="&xsd;string">forbid</config:hasMode>
- <config:hasObjectFilterSet rdf:resource="#dbpediaGeneralObjectFilter"/>
- <config:hasPredicateFilterSet rdf:resource="#dbpediaGeneralPredicateFilter"/>
- <config:usesLiterals rdf:datatype="&xsd;string">false</config:usesLiterals>
- </config:TypedQuery>
- <config:PredicateFilterSet rdf:about="#sameAsFilter">
- <config:filtersURI rdf:datatype="&xsd;string">http://www.w3.org/2002/07/owl#sameAs</config:filtersURI>
- </config:PredicateFilterSet>
- <config:ObjectFilterSet rdf:about="#yagoObjectFilter">
- <config:filtersURI rdf:datatype="&xsd;string">http://dbpedia.org/resource/Category:Articles_</config:filtersURI>
- <config:filtersURI rdf:datatype="&xsd;string">http://dbpedia.org/resource/Category:Wikipedia_</config:filtersURI>
- </config:ObjectFilterSet>
- <config:PredicateFilterSet rdf:about="#yagoPredicateFilter">
- <config:filtersURI rdf:datatype="&xsd;string">http://www.w3.org/2004/02/skos/core</config:filtersURI>
- </config:PredicateFilterSet>
- <rdf:Description rdf:about="#hasURL">
- <rdf:type>
- <rdf:Description rdf:about="http://www.w3.org/2002/07/owl#DatatypeProperty"/>
- </rdf:type>
- <rdfs:domain>
- <rdf:Description rdf:about="#SparqlEndpoint"/>
- </rdfs:domain>
- </rdf:Description>
-</rdf:RDF>
Added: trunk/examples/sparql/roles_notworking/README.txt
===================================================================
--- trunk/examples/sparql/roles_notworking/README.txt (rev 0)
+++ trunk/examples/sparql/roles_notworking/README.txt 2008-02-18 14:26:58 UTC (rev 600)
@@ -0,0 +1,4 @@
+
+The learning of domain/range for roles has been deactivated for this release,
+because it involved several manual steps, which were not supported by a gui
+or a dialog system. We try to automate this process for the next release.
\ No newline at end of file
Modified: trunk/src/dl-learner/org/dllearner/kb/sparql/SparqlQuery.java
===================================================================
--- trunk/src/dl-learner/org/dllearner/kb/sparql/SparqlQuery.java 2008-02-18 12:35:49 UTC (rev 599)
+++ trunk/src/dl-learner/org/dllearner/kb/sparql/SparqlQuery.java 2008-02-18 14:26:58 UTC (rev 600)
@@ -83,6 +83,7 @@
}
logger.info("query SPARQL server");
try{
+ //TODO after overnext Jena release
HttpQuery.urlLimit = 3*1024 ;
rs = queryExecution.execSelect();
logger.info(rs.getResultVars().toString());
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