Canceled tdbloader operation generates "WARN DatasetPrefixesTDB :: Mangled prefix map: graph name="

[Pellegrino, Donald (DA)]

I attempted to load the NCBI PubChem RDF Compound data 
(https://pubchem.ncbi.nlm.nih.gov/rdf/#_Toc421254632) into an Apache Jena TDB 
database. Given 18 hours, the load of PubChem RDF Compound data was only 12/109 
.ttl.gz files (11%) complete. Therefore, I hit CTRL+C to cancel the tdbloader 
operation and try other approaches. Unfortunately, now when I try to run 
tdbloader I get "WARN  DatasetPrefixesTDB   :: Mangled prefix map: graph name=" 
followed by a java.lang.NullPointerException. Partial tdbloader error output is 
below.

Please let me know if you have any suggestions for debugging this error.

---

tdbloader --verbose --loc=/home/irkmoo/reactionsdb/ pc_compound_type.ttl.gz
Java maximum memory: 1029177344
symbol:http://jena.hpl.hp.com/ARQ#constantBNodeLabels = true
symbol:http://jena.hpl.hp.com/ARQ#regexImpl = 
symbol:http://jena.hpl.hp.com/ARQ#javaRegex
symbol:http://jena.hpl.hp.com/ARQ#stageGenerator = 
com.hp.hpl.jena.tdb.solver.StageGeneratorDirectTDB@18078bef
symbol:http://jena.hpl.hp.com/ARQ#strictSPARQL = false
symbol:http://jena.hpl.hp.com/ARQ#enablePropertyFunctions = true
10:26:22 INFO  loader               :: -- Start triples data phase
10:26:22 INFO  loader               :: ** Load into triples table with existing 
data
10:26:22 INFO  loader               :: -- Start quads data phase
10:26:22 INFO  loader               :: ** Load empty quads table
10:26:22 INFO  loader               :: Load: pc_compound_type.ttl.gz -- 
2015/07/24 10:26:22 EDT
10:26:22 WARN  DatasetPrefixesTDB   :: Mangled prefix map: graph name=
java.lang.NullPointerException
        at 
com.hp.hpl.jena.tdb.store.DatasetPrefixesTDB.readPrefixMap(DatasetPrefixesTDB.java:119)
        at 
com.hp.hpl.jena.sparql.graph.GraphPrefixesProjection.getNsPrefixMap(GraphPrefixesProjection.java:62)
        at 
com.hp.hpl.jena.tdb.store.DatasetPrefixesTDB.getPrefixMapping(DatasetPrefixesTDB.java:168)
        at 
com.hp.hpl.jena.tdb.store.DatasetPrefixesTDB.getPrefixMapping(DatasetPrefixesTDB.java:160)
        at 
com.hp.hpl.jena.tdb.store.bulkloader.BulkLoader$DestinationDSG.prefix(BulkLoader.java:272)
        at 
org.apache.jena.riot.lang.LangTurtleBase.emitPrefix(LangTurtleBase.java:492)
        at 
org.apache.jena.riot.lang.LangTurtleBase.directivePrefix(LangTurtleBase.java:164)
        at 
org.apache.jena.riot.lang.LangTurtleBase.directive(LangTurtleBase.java:140)
        at 
org.apache.jena.riot.lang.LangTurtleBase.runParser(LangTurtleBase.java:79)
        at org.apache.jena.riot.lang.LangBase.parse(LangBase.java:42)
        at 
org.apache.jena.riot.RDFParserRegistry$ReaderRIOTLang.read(RDFParserRegistry.java:182)
        at org.apache.jena.riot.RDFDataMgr.process(RDFDataMgr.java:906)
        at org.apache.jena.riot.RDFDataMgr.parse(RDFDataMgr.java:687)
        at org.apache.jena.riot.RDFDataMgr.parse(RDFDataMgr.java:666)
        at org.apache.jena.riot.RDFDataMgr.parse(RDFDataMgr.java:654)
        at 
com.hp.hpl.jena.tdb.store.bulkloader.BulkLoader.loadQuads$(BulkLoader.java:148)
        at 
com.hp.hpl.jena.tdb.store.bulkloader.BulkLoader.loadDataset(BulkLoader.java:114)
        at com.hp.hpl.jena.tdb.TDBLoader.loadDataset$(TDBLoader.java:261)
        at com.hp.hpl.jena.tdb.TDBLoader.loadDataset(TDBLoader.java:193)
        at com.hp.hpl.jena.tdb.TDBLoader.load(TDBLoader.java:74)
        at tdb.tdbloader.loadQuads(tdbloader.java:118)
        at tdb.tdbloader.exec(tdbloader.java:86)
        at arq.cmdline.CmdMain.mainMethod(CmdMain.java:102)
        at arq.cmdline.CmdMain.mainRun(CmdMain.java:63)
        at arq.cmdline.CmdMain.mainRun(CmdMain.java:50)
        at tdb.tdbloader.main(tdbloader.java:44)
10:26:22 WARN  DatasetPrefixesTDB   :: Mangled prefix map: graph name=
java.lang.NullPointerException
...