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[bioontology-support] bulk download of mapping data?

Miller, Mark markampa at
Fri Jul 27 12:45:15 PDT 2018

I'm user markampa

I would like to download a large number of your high-quality term mappings.  I think I see how to do it thought the API, but would prefer downloading a static file or retrieving the mappings with a SPARQL query.

I see but can't seem to get the sample queries to work.

I created a query file like this

mark at office:~/apache-jena-3.8.0/bin$ cat > ~/bpmap.rq
PREFIX map: <>
PREFIX rdfs: <>
PREFIX skos: <>
        ?mapping map:target <> .
        ?mapping map:source ?source .

And submitted it with Jena's remote query command like this, but got an error.

mark at office:~/apache-jena-3.8.0/bin$ ./rsparql --service '' --query  ~/bpmap.rq
HTTP Exeception
HttpException: 500 HTTP 500 error making the query: INTERNAL SERVER ERROR
        at org.apache.jena.sparql.engine.http.HttpQuery.rewrap(
        at org.apache.jena.sparql.engine.http.HttpQuery.execGet(
        at org.apache.jena.sparql.engine.http.HttpQuery.exec(
        at org.apache.jena.sparql.engine.http.QueryEngineHTTP.execResultSetInner(
        at org.apache.jena.sparql.engine.http.QueryEngineHTTP.execSelect(
        at org.apache.jena.sparql.util.QueryExecUtils.doSelectQuery(
        at org.apache.jena.sparql.util.QueryExecUtils.executeQuery(
        at arq.rsparql.exec(
        at jena.cmd.CmdMain.mainMethod(
        at jena.cmd.CmdMain.mainRun(
        at jena.cmd.CmdMain.mainRun(
        at arq.rsparql.main(
mark at office:~/apache-jena-3.8.0/bin$
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