Re: java.lang.StringIndexOutOfBoundsException with Jena Text

Wed, 30 Sep 2020 03:37:58 -0700 

In the data (probbaly in a URI) - it's reading the database.

On 30/09/2020 10:36, Mikael Pesonen wrote:
I couldn't find any non Ascii characters in the config file ([^\x00-\x7F]+)... 

On 30.9.2020 0:48, Andy Seaborne wrote:

Looks like

https://issues.apache.org/jira/browse/JENA-1892 , 1890

    Andy

On 29/09/2020 15:13, Mikael Pesonen wrote:


Hi
I'm building a new text index with following command and getting java error.
/usr/bin/java -cp ./fuseki-server.jar jena.textindexer --desc=fuseki_config.ttl 

After the command I get 4 files in /home/text/tools/jena_text_index/

_0.fdt
_0.fdx
segments_1
write.lock

Any idea what could case this?


Error is:

java.lang.StringIndexOutOfBoundsException: String index out of range: 59
         at java.base/java.lang.StringLatin1.charAt(StringLatin1.java:48) 
         at java.base/java.lang.String.charAt(String.java:711)
         at org.apache.jena.atlas.lib.StrUtils.decodeHex(StrUtils.java:212)          at org.apache.jena.tdb.store.nodetable.NodecSSE.decode(NodecSSE.java:121) 
         at org.apache.jena.tdb.lib.NodeLib.decode(NodeLib.java:120)
         at org.apache.jena.tdb.lib.NodeLib.fetchDecode(NodeLib.java:97)
         at org.apache.jena.tdb.store.nodetable.NodeTableNative.readNodeFromTable(NodeTableNative.java:182)          at org.apache.jena.tdb.store.nodetable.NodeTableNative._retrieveNodeByNodeId(NodeTableNative.java:108)          at org.apache.jena.tdb.store.nodetable.NodeTableNative.getNodeForNodeId(NodeTableNative.java:67)          at org.apache.jena.tdb.store.nodetable.NodeTableCache._retrieveNodeByNodeId(NodeTableCache.java:128)          at org.apache.jena.tdb.store.nodetable.NodeTableCache.getNodeForNodeId(NodeTableCache.java:82)          at org.apache.jena.tdb.store.nodetable.NodeTableWrapper.getNodeForNodeId(NodeTableWrapper.java:50)          at org.apache.jena.tdb.store.nodetable.NodeTableInline.getNodeForNodeId(NodeTableInline.java:67) 
         at org.apache.jena.tdb.lib.TupleLib.quad(TupleLib.java:126)
         at org.apache.jena.tdb.lib.TupleLib.quad(TupleLib.java:120)
         at org.apache.jena.tdb.lib.TupleLib.lambda$convertToQuads$3(TupleLib.java:59) 
         at org.apache.jena.atlas.iterator.Iter$2.next(Iter.java:352)
         at org.apache.jena.atlas.iterator.IteratorCons.next(IteratorCons.java:104) 
         at jena.textindexer.exec(textindexer.java:130)
         at jena.cmd.CmdMain.mainMethod(CmdMain.java:93)
         at jena.cmd.CmdMain.mainRun(CmdMain.java:58)
         at jena.cmd.CmdMain.mainRun(CmdMain.java:45)
         at jena.textindexer.main(textindexer.java:52)
mikael@insight-dev:/home/text/tools/apache-jena-fuseki-3.14.0$ /usr/bin/java -cp ./fuseki-server.jar jena.textindexer --desc=fuseki_config.ttl 
java.lang.StringIndexOutOfBoundsException: String index out of range: 59
         at java.base/java.lang.StringLatin1.charAt(StringLatin1.java:48) 
         at java.base/java.lang.String.charAt(String.java:711)
         at org.apache.jena.atlas.lib.StrUtils.decodeHex(StrUtils.java:212)          at org.apache.jena.tdb.store.nodetable.NodecSSE.decode(NodecSSE.java:121) 
         at org.apache.jena.tdb.lib.NodeLib.decode(NodeLib.java:120)
         at org.apache.jena.tdb.lib.NodeLib.fetchDecode(NodeLib.java:97)
         at org.apache.jena.tdb.store.nodetable.NodeTableNative.readNodeFromTable(NodeTableNative.java:182)          at org.apache.jena.tdb.store.nodetable.NodeTableNative._retrieveNodeByNodeId(NodeTableNative.java:108)          at org.apache.jena.tdb.store.nodetable.NodeTableNative.getNodeForNodeId(NodeTableNative.java:67)          at org.apache.jena.tdb.store.nodetable.NodeTableCache._retrieveNodeByNodeId(NodeTableCache.java:128)          at org.apache.jena.tdb.store.nodetable.NodeTableCache.getNodeForNodeId(NodeTableCache.java:82)          at org.apache.jena.tdb.store.nodetable.NodeTableWrapper.getNodeForNodeId(NodeTableWrapper.java:50)          at org.apache.jena.tdb.store.nodetable.NodeTableInline.getNodeForNodeId(NodeTableInline.java:67) 
         at org.apache.jena.tdb.lib.TupleLib.quad(TupleLib.java:126)
         at org.apache.jena.tdb.lib.TupleLib.quad(TupleLib.java:120)
         at org.apache.jena.tdb.lib.TupleLib.lambda$convertToQuads$3(TupleLib.java:59) 
         at org.apache.jena.atlas.iterator.Iter$2.next(Iter.java:352)
         at org.apache.jena.atlas.iterator.IteratorCons.next(IteratorCons.java:104) 
         at jena.textindexer.exec(textindexer.java:130)
         at jena.cmd.CmdMain.mainMethod(CmdMain.java:93)
         at jena.cmd.CmdMain.mainRun(CmdMain.java:58)
         at jena.cmd.CmdMain.mainRun(CmdMain.java:45)
         at jena.textindexer.main(textindexer.java:52)


config:

@prefix :<http://localhost/jena_example/#>  .
@prefix rdf:<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs:<http://www.w3.org/2000/01/rdf-schema#>  .
@prefix tdb:<http://jena.hpl.hp.com/2008/tdb#>  .
@prefix ja:<http://jena.hpl.hp.com/2005/11/Assembler#>  .
@prefix text:<http://jena.apache.org/text#>  .
@prefix skos:<http://www.w3.org/2004/02/skos/core#> .
@prefix fuseki:<http://jena.apache.org/fuseki#>  .
@prefix vcard:<http://www.w3.org/2006/vcard/ns#> .

## Example of a TDB dataset and text index
## Initialize TDB
[] ja:loadClass "org.apache.jena.tdb.TDB" .
tdb:DatasetTDB  rdfs:subClassOf  ja:RDFDataset .
tdb:GraphTDB    rdfs:subClassOf  ja:Model .

## Initialize text query
[] ja:loadClass       "org.apache.jena.query.text.TextQuery" .
# A TextDataset is a regular dataset with a text index.
text:TextDataset      rdfs:subClassOf   ja:RDFDataset .
# Lucene index
text:TextIndexLucene  rdfs:subClassOf   text:TextIndex .


## ---------------------------------------------------------------
# build: java -cp ./fuseki-server.jar jena.textindexer --desc=fuseki_config.ttl 

:text_dataset rdf:type     text:TextDataset ;
      text:dataset   :my_dataset ;
      text:index     <#indexLucene> ;
      .

# A TDB dataset used for RDF storage
:my_dataset rdf:type      tdb:DatasetTDB ;
      tdb:location "/home/text/tools/jena_data/" ;
#    tdb:unionDefaultGraph true ; # Optional
      .

# Text index description
<#indexLucene> a text:TextIndexLucene ;
      text:directory <file:/home/text/tools/jena_text_index/> ;
      text:entityMap <#entMap> ;
      text:storeValues true ;
      text:analyzer [ a text:StandardAnalyzer ] ;
      text:queryAnalyzer [ a text:KeywordAnalyzer ] ;
      text:queryParser text:AnalyzingQueryParser ;
      text:multilingualSupport true ;
   .

<#entMap> a text:EntityMap ;
      text:defaultField     "vcard_fn" ;
      text:entityField      "uri" ;
      text:uidField         "uid" ;
      text:langField        "lang" ;
      text:graphField       "graph" ;
      text:map (
           [ text:field "vcard_fn" ; text:predicate vcard:fn ]
           [ text:field "altLabel"  ; text:predicate skos:altLabel ]
           ) .

<#service> rdf:type fuseki:Service ;
      fuseki:name                     "/ds" ;   # http://host:port/ds-ro
      fuseki:serviceQuery             "query" ;    # SPARQL query service       fuseki:serviceQuery             "sparql" ;   # SPARQL query service       fuseki:serviceUpdate            "update" ;   # SPARQL update service       fuseki:serviceUpload            "upload" ;   # Non-SPARQL upload service       fuseki:serviceReadWriteGraphStore "data" ;     # SPARQL Graph store protocol (read and write) 
      fuseki:dataset           :text_dataset ;
      .

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