bio4j/angulillos-titan — pull request #5 by eparejatobes (2014-11-07 14:51:00+00:00)
Title: Issue when querying an index (presumably due to an id including dots...)

Here's the exception:

> Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
INFO: accessionSt P23599
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
INFO: enzymeID: 4.4.1.14
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: null
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: com.bio4j.angulillos.titan.TitanTypedVertexIndex$Default.lambda$query$3(TitanTypedVertexIndex.java:64)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: com.bio4j.angulillos.titan.TitanTypedVertexIndex$Default$$Lambda$1/1207608476.apply(Unknown Source)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: java.util.stream.ReferencePipeline$3$1.accept(ReferencePipeline.java:193)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: java.util.Spliterators$IteratorSpliterator.tryAdvance(Spliterators.java:1812)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: java.util.stream.ReferencePipeline.forEachWithCancel(ReferencePipeline.java:126)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: java.util.stream.AbstractPipeline.copyIntoWithCancel(AbstractPipeline.java:529)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: java.util.stream.AbstractPipeline.copyInto(AbstractPipeline.java:516)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: java.util.stream.AbstractPipeline.wrapAndCopyInto(AbstractPipeline.java:502)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: java.util.stream.FindOps$FindOp.evaluateSequential(FindOps.java:152)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: java.util.stream.AbstractPipeline.evaluate(AbstractPipeline.java:234)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: java.util.stream.ReferencePipeline.findFirst(ReferencePipeline.java:464)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: com.bio4j.angulillos.TypedElementIndex$Unique.getElement(TypedElementIndex.java:44)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: com.bio4j.angulillos.TypedVertexIndex$Unique.getVertex(TypedVertexIndex.java:41)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB.importUniprotEnzymeDB(ImportUniprotEnzymeDB.java:121)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: com.bio4j.titan.model.uniprot_enzyme.programs.ImportUniprotEnzymeDBTitan.execute(ImportUniprotEnzymeDBTitan.java:59)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: com.ohnosequences.util.ExecuteFromFile.main(ExecuteFromFile.java:66)
Nov 07, 2014 10:35:12 AM com.bio4j.model.uniprot_enzymedb.programs.ImportUniprotEnzymeDB importUniprotEnzymeDB
SEVERE: com.bio4j.titan.programs.ImportTitanDB.main(ImportTitanDB.java:11)

And here's the piece of code that's throwing the exception:

https://github.com/bio4j/bio4j/blob/master/src/main/java/com/bio4j/model/uniprot_enzymedb/programs/ImportUniprotEnzymeDB.java#L121