don't worry it's a common problem and frequent source of confusion not only
with jena but java projects. try to simply inlcude all the jars.
I presume you run this on a linux box with OpenJDK 8. correct?
now once you have set up jena just add the following
{replace_with_your_path}/apache-jena-3.8.0/lib/*
On Mon, Sep 17, 2018 at 10:56 AM Markus Neumann <mneum...@meteomatics.com>
wrote:
> This is embarrassing but I don't get it.
>
> I've configured $JENA_HOME and adjusted the PATH.
>
> Now what classpath should I include when invoking the indexer?
> What I've tried so far:
>
> $ cd $JENA_HOME
> $ java -cp jena-spatial-3.8.0.jar jena.spatialindexer
> --desc=../fuseki-server/run/configuration/mm.ttl
> Error: Could not find or load main class jena.spatialindexer
> $ java -cp lib/*.jar jena.spatialindexer
> --desc=../fuseki-server/run/configuration/mm.ttl
> Error: Could not find or load main class lib.commons-cli-1.4.jar
>
> Thanks for your patience
>
> > Am 17.09.2018 um 11:38 schrieb Marco Neumann <marco.neum...@gmail.com>:
> >
> > yes correct, this looks good. now include the classpath during invocation
> > of the spatialindexer
> >
> > in addition it's always a good idea to properly configure jena along your
> > java runtime environment settings to avoid jdk / lib conflicts during
> > execution.
> >
> > https://jena.apache.org/documentation/tools/index.html <
> https://jena.apache.org/documentation/tools/index.html>
> >
> >
> >
> > On Mon, Sep 17, 2018 at 10:28 AM Markus Neumann <
> mneum...@meteomatics.com <mailto:mneum...@meteomatics.com>>
> > wrote:
> >
> >> 1.: what do you mean by indexer?
> >> Probably my biggest problem is, that I have no clue how to find out,
> where
> >> the jena.spatialindexer could be located except for asking here.
> >>
> >> Here is the content of the apache jena I downloaded:
> >> $ ls -lh ../apache-jena-3.8.0/lib
> >> total 17M
> >> -rw-r--r-- 1 process process 162K Oct 26 2017 collection-0.7.jar
> >> -rw-r--r-- 1 process process 53K Oct 26 2017 commons-cli-1.4.jar
> >> -rw-r--r-- 1 process process 328K Mar 5 2018 commons-codec-1.11.jar
> >> -rw-r--r-- 1 process process 576K Jun 25 09:59 commons-compress-1.17.jar
> >> -rw-r--r-- 1 process process 41K Mar 5 2018 commons-csv-1.5.jar
> >> -rw-r--r-- 1 process process 210K Mar 5 2018 commons-io-2.6.jar
> >> -rw-r--r-- 1 process process 425K Oct 26 2017 commons-lang3-3.4.jar
> >> -rw-r--r-- 1 process process 749K Jun 25 10:01 httpclient-4.5.5.jar
> >> -rw-r--r-- 1 process process 158K Jun 25 10:01
> httpclient-cache-4.5.5.jar
> >> -rw-r--r-- 1 process process 318K Jun 25 10:01 httpcore-4.4.9.jar
> >> -rw-r--r-- 1 process process 65K Oct 26 2017
> >> jackson-annotations-2.9.0.jar
> >> -rw-r--r-- 1 process process 315K Jun 25 10:01 jackson-core-2.9.5.jar
> >> -rw-r--r-- 1 process process 1.3M Jun 25 10:01
> jackson-databind-2.9.5.jar
> >> -rw-r--r-- 1 process process 17K Oct 26 2017 jcl-over-slf4j-1.7.25.jar
> >> -rw-r--r-- 1 process process 2.9M Jun 25 11:03 jena-arq-3.8.0.jar
> >> -rw-r--r-- 1 process process 211K Jun 25 11:01 jena-base-3.8.0.jar
> >> -rw-r--r-- 1 process process 259K Jun 25 11:07 jena-cmds-3.8.0.jar
> >> -rw-r--r-- 1 process process 1.7M Jun 25 11:02 jena-core-3.8.0.jar
> >> -rw-r--r-- 1 process process 135K Jun 25 11:05 jena-dboe-base-3.8.0.jar
> >> -rw-r--r-- 1 process process 21K Jun 25 11:05 jena-dboe-index-3.8.0.jar
> >> -rw-r--r-- 1 process process 74K Jun 25 11:05
> >> jena-dboe-transaction-3.8.0.jar
> >> -rw-r--r-- 1 process process 95K Jun 25 11:06
> >> jena-dboe-trans-data-3.8.0.jar
> >> -rw-r--r-- 1 process process 135K Jun 25 11:01 jena-iri-3.8.0.jar
> >> -rw-r--r-- 1 process process 49K Jun 25 11:04
> jena-rdfconnection-3.8.0.jar
> >> -rw-r--r-- 1 process process 2.8M Jun 25 11:01
> jena-shaded-guava-3.8.0.jar
> >> -rw-r--r-- 1 process process 264K Jun 25 11:06 jena-tdb2-3.8.0.jar
> >> -rw-r--r-- 1 process process 512K Jun 25 11:04 jena-tdb-3.8.0.jar
> >> -rw-r--r-- 1 process process 1.6M Jun 25 10:01 jsonld-java-0.12.0.jar
> >> -rw-r--r-- 1 process process 232K Mar 5 2018 libthrift-0.10.0.jar
> >> -rw-r--r-- 1 process process 479K Oct 26 2017 log4j-1.2.17.jar
> >> -rw-r--r-- 1 process process 41K Oct 26 2017 slf4j-api-1.7.25.jar
> >> -rw-r--r-- 1 process process 12K Oct 26 2017 slf4j-log4j12-1.7.25.jar
> >>
> >> 2.: Turns out, I don't need the jts. after commenting out the affected
> >> lines, the server still runs fine. (But still without spatial index)
> >>
> >> Best Markus
> >>
> >>> Am 17.09.2018 um 11:14 schrieb Marco Neumann <marco.neum...@gmail.com
> >:
> >>>
> >>> Ok let's take a look at this.
> >>>
> >>> 1. please include in the indexer in the classpath. It's part of the
> >> current
> >>> jena distribution.
> >>>
> >>> 2. do you need jts? it's a package that allows you to index multi point
> >>> geometries. here a sample query would be helpful. If single point
> >>> geometries are indexed and used in conjunction with MBR range queries.
> >>> there is no need for jts.
> >>>
> >>>
> >>> On Mon, Sep 17, 2018 at 9:14 AM Markus Neumann <
> mneum...@meteomatics.com
> >> <mailto:mneum...@meteomatics.com <mailto:mneum...@meteomatics.com>>>
> >>> wrote:
> >>>
> >>>> Hi,
> >>>> (sorry for the long post)
> >>>>
> >>>> I've been struggling with the spatial index for a while now.
> >>>> I've read
> >> https://jena.apache.org/documentation/query/spatial-query.html <
> https://jena.apache.org/documentation/query/spatial-query.html> <
> >> https://jena.apache.org/documentation/query/spatial-query.html <
> https://jena.apache.org/documentation/query/spatial-query.html>> <
> >>>> https://jena.apache.org/documentation/query/spatial-query.html <
> https://jena.apache.org/documentation/query/spatial-query.html> <
> >> https://jena.apache.org/documentation/query/spatial-query.html <
> https://jena.apache.org/documentation/query/spatial-query.html>>> and
> >>>> skipped through about every spatial related thread here on the list.
> >>>> I managed to get an in-memory version up and running at some point
> >>>> following this
> >>>>
> >>>>
> >>
> https://stackoverflow.com/questions/45814956/building-geospatial-index-when-working-with-jena-fuseki/52099066#52099066
> <
> https://stackoverflow.com/questions/45814956/building-geospatial-index-when-working-with-jena-fuseki/52099066#52099066
> >
> >> <
> >>
> https://stackoverflow.com/questions/45814956/building-geospatial-index-when-working-with-jena-fuseki/52099066#52099066
> <
> https://stackoverflow.com/questions/45814956/building-geospatial-index-when-working-with-jena-fuseki/52099066#52099066
> >
> >>>
> >>>> <
> >>>>
> >>
> https://stackoverflow.com/questions/45814956/building-geospatial-index-when-working-with-jena-fuseki/52099066#52099066
> <
> https://stackoverflow.com/questions/45814956/building-geospatial-index-when-working-with-jena-fuseki/52099066#52099066
> >
> >> <
> >>
> https://stackoverflow.com/questions/45814956/building-geospatial-index-when-working-with-jena-fuseki/52099066#52099066
> <
> https://stackoverflow.com/questions/45814956/building-geospatial-index-when-working-with-jena-fuseki/52099066#52099066
> >
> >>>
> >>>>>
> >>>> and this
> >>>> https://ceyxstudios.com/2017/11/25/rdf-datenbank-mit-geo-funktionen/
> <https://ceyxstudios.com/2017/11/25/rdf-datenbank-mit-geo-funktionen/> <
> >> https://ceyxstudios.com/2017/11/25/rdf-datenbank-mit-geo-funktionen/> <
> >>>> https://ceyxstudios.com/2017/11/25/rdf-datenbank-mit-geo-funktionen/>
> >>>>
> >>>> But that was on a small dataset that I uploaded via the web-interface
> of
> >>>> Fuseki.
> >>>>
> >>>> Now the story is a bit different. I'm building the database using
> >>>> tdbloader2 and would like to create the spatial index upfront.
> >>>>
> >>>> java -cp jena-spatial.jar jena.spatialindexer --desc=assembler_file
> >>>> I could not figure out, how to get this line to work. I have the
> >> following
> >>>> possible scenarios:
> >>>>
> >>>> 1. I download the jena-spatial-3.8.0.jar and specify that in the
> >> classpath:
> >>>> $ java -cp jena-spatial-3.8.0.jar jena.spatialindexer
> >>>> --desc=../fuseki-server/run/configuration/mm.ttl
> >>>> Error: Could not find or load main class jena.spatialindexer
> >>>>
> >>>> 2. I use the fuseki-server jar:
> >>>> $ java -cp fuseki-server.jar jena.spatialindexer
> >>>> --desc=./run/configuration/mm.ttl
> >>>> WARN Custom SpatialContextFactory lib is not ready in
> >>>> classpath:com/vividsolutions/jts/geom/CoordinateSequenceFactory
> >>>> org.apache.jena.dboe.transaction.txn.TransactionException: Not in a
> >>>> transaction
> >>>>
> >>>> I managed to eliminate the warning about jts by including that in the
> >>>> classpath, but the error remains the same (with full trace):
> >>>> java -cp fuseki-server.jar:jts-1.13.jar jena.spatialindexer
> >>>> --desc=./run/configuration/mm.ttl
> >>>> org.apache.jena.dboe.transaction.txn.TransactionException: Not in a
> >>>> transaction
> >>>> at
> >>>>
> >>
> org.apache.jena.dboe.transaction.txn.TransactionalComponentLifecycle.checkTxn(TransactionalComponentLifecycle.java:417)
> >>>> at
> >>>>
> >>
> org.apache.jena.dboe.trans.bplustree.BPlusTree.getRootRead(BPlusTree.java:159)
> >>>> at
> >>>>
> >>
> org.apache.jena.dboe.trans.bplustree.BPlusTree.iterator(BPlusTree.java:348)
> >>>> at
> >>>>
> >>
> org.apache.jena.tdb2.store.tupletable.TupleIndexRecord.all(TupleIndexRecord.java:251)
> >>>> at
> >>>>
> >>
> org.apache.jena.tdb2.store.tupletable.TupleTable.find(TupleTable.java:148)
> >>>> at
> >>>>
> >>
> org.apache.jena.tdb2.store.nodetupletable.NodeTupleTableConcrete.find(NodeTupleTableConcrete.java:161)
> >>>> at
> >>>>
> >>
> org.apache.jena.tdb2.store.nodetupletable.NodeTupleTableConcrete.find(NodeTupleTableConcrete.java:150)
> >>>> at
> >>>>
> >>
> org.apache.jena.tdb2.store.nodetupletable.NodeTupleTableConcrete.findAsNodeIds(NodeTupleTableConcrete.java:141)
> >>>> at
> >> org.apache.jena.tdb2.store.TripleTable.find(TripleTable.java:64)
> >>>> at
> >>>>
> >>
> org.apache.jena.tdb2.store.DatasetGraphTDB.findInDftGraph(DatasetGraphTDB.java:104)
> >>>> at
> >>>>
> >>
> org.apache.jena.sparql.core.DatasetGraphBaseFind.findAny(DatasetGraphBaseFind.java:72)
> >>>> at
> >>>>
> >>
> org.apache.jena.sparql.core.DatasetGraphBaseFind.find(DatasetGraphBaseFind.java:50)
> >>>> at
> >>>>
> >>
> org.apache.jena.sparql.core.DatasetGraphWrapper.find(DatasetGraphWrapper.java:152)
> >>>> at
> >>>>
> >>
> org.apache.jena.sparql.core.DatasetGraphWrapper.find(DatasetGraphWrapper.java:152)
> >>>> at jena.spatialindexer.exec(spatialindexer.java:110)
> >>>> 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.spatialindexer.main(spatialindexer.java:53)
> >>>>
> >>>> My configuration is the following:
> >>>> @prefix : <http://base/#> .
> >>>> @prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
> >>>> @prefix tdb2: <http://jena.apache.org/2016/tdb#> .
> >>>> @prefix ja: <http://jena.hpl.hp.com/2005/11/Assembler#> .
> >>>> @prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
> >>>> @prefix fuseki: <http://jena.apache.org/fuseki#> .
> >>>> @prefix spatial: <http://jena.apache.org/spatial#> .
> >>>> @prefix geo: <http://www.w3.org/2003/01/geo/wgs84_pos#> .
> >>>> @prefix geosparql: <http://www.opengis.net/ont/geosparql#> .
> >>>> # Spatial
> >>>> [] ja:loadClass "org.apache.jena.query.spatial.SpatialQuery" .
> >>>> spatial:SpatialtDataset rdfs:subClassOf ja:RDFDataset .
> >>>> spatial:SpatialIndexLucene rdfs:subClassOf spatial:SpatialIndex .
> >>>>
> >>>> :service_tdb_all a fuseki:Service ;
> >>>> rdfs:label "TDB2 mm" ;
> >>>> fuseki:dataset :spatial_dataset ;
> >>>> fuseki:name "mm" ;
> >>>> fuseki:serviceQuery "query" , "sparql" ;
> >>>> fuseki:serviceReadGraphStore "get" ;
> >>>> fuseki:serviceReadWriteGraphStore
> >>>> "data" ;
> >>>> fuseki:serviceUpdate "update" ;
> >>>> fuseki:serviceUpload "upload" .
> >>>>
> >>>> :spatial_dataset a spatial:SpatialDataset ;
> >>>> spatial:dataset :tdb_dataset_readwrite ;
> >>>> spatial:index <#indexLucene> ;
> >>>> .
> >>>>
> >>>> <#indexLucene> a spatial:SpatialIndexLucene ;
> >>>> spatial:directory <file:Lucene> ;
> >>>> #spatial:directory "mem" ;
> >>>> spatial:definition <#definition> ;
> >>>> .
> >>>>
> >>>> <#definition> a spatial:EntityDefinition ;
> >>>> spatial:entityField "uri" ;
> >>>> spatial:geoField "geo" ;
> >>>> # custom geo predicates for 1) Latitude/Longitude Format
> >>>> spatial:hasSpatialPredicatePairs (
> >>>> [ spatial:latitude geo:lat ; spatial:longitude geo:long ]
> >>>> ) ;
> >>>> # custom geo predicates for 2) Well Known Text (WKT) Literal
> >>>> spatial:hasWKTPredicates (geosparql:asWKT) ;
> >>>> # custom SpatialContextFactory for 2) Well Known Text (WKT) Literal
> >>>> spatial:spatialContextFactory
> >>>> # "com.spatial4j.core.context.jts.JtsSpatialContextFactory"
> >>>>
> "org.locationtech.spatial4j.context.jts.JtsSpatialContextFactory"
> >>>> .
> >>>>
> >>>> :tdb_dataset_readwrite
> >>>> a tdb2:DatasetTDB2 ;
> >>>> tdb2:location
> >>>> "/srv/linked_data_store/fuseki-server/run/databases/mm" .
> >>>>
> >>>> And I've changed the fuseki script to include the jts jar:
> >>>> FUSEKI_CLASSES=$FUSEKI_HOME/jts-1.13.jar
> >>>>
> >>>> I see no errors or warnings in the server log, when starting with that
> >>>> configuration, the Lucene folder is created and populated with
> >> something:
> >>>> $ ll run/configuration/Lucene/
> >>>> total 4
> >>>> -rw-rw-r-- 1 process process 71 Sep 14 09:28 segments_1
> >>>> -rw-rw-r-- 1 process process 0 Sep 14 09:28 write.lock
> >>>>
> >>>> But any spatial query does not return any results.
> >>>> Any help on how to tackle this would be highly appreciated.
> >>>>
> >>>> Best
> >>>> Markus Neumann
> >>>>
> >>>>
> >>>
> >>> --
> >>>
> >>>
> >>> ---
> >>> Marco Neumann
> >>> KONA
> >>
> >>
> >
> > --
> >
> >
> > ---
> > Marco Neumann
> > KONA
>
>
--
---
Marco Neumann
KONA
