Hi, no need to supply us with the code. Its a known issue that has been fixed in 0.9-milestone1. If you can easily upgrade to 0.9-milestone1, that's the way to go.
Otherwise, you can set the version in your poms to 0.8-SNAPSHOT and you should get a version with the fix (through Apache's Snapshot repository). On Mon, Apr 13, 2015 at 6:28 PM, Stephan Ewen <se...@apache.org> wrote: > Hi! > > Thanks you for reporting this. > > The Apache mailing lists do not support attachments, unfortunately. To help > us fix this, can you upload the attachment (screenshot) somewhere and post > a link here? > > Thanks, > Stephan > > > On Mon, Apr 13, 2015 at 6:25 PM, Filip Łęczycki <filipleczy...@gmail.com> > wrote: > > > Hi > > > > I have an issue while running the following line while usig flink v 0.8.1 > > (: > > val asdf = new > AvroTypeInfo[AlignmentRecord](classOf[AlignmentRecord]) > > > > Alignment record belongs to the package : > > org.bdgenomics.formats.avro.AlignmentRecord > > > > > http://mvnrepository.com/artifact/org.bdgenomics.bdg-formats/bdg-formats/0.4.0 > > > > While trying to run I am receivng following exception: > > > > Exception in thread "main" java.lang.IndexOutOfBoundsException > > at > > > org.apache.flink.api.java.typeutils.PojoTypeInfo.getPojoFieldAt(PojoTypeInfo.java:178) > > at > > > org.apache.flink.api.java.typeutils.AvroTypeInfo.generateFieldsFromAvroSchema(AvroTypeInfo.java:52) > > at > > > org.apache.flink.api.java.typeutils.AvroTypeInfo.<init>(AvroTypeInfo.java:38) > > at flinkTest.FlinkBAMReader$.main(FlinkBAMReader.scala:74) > > > > While debugging I have noticed that the generated AvroTypeInfo class has > a > > fields array with 42 elements, while the totalFIelds property has value > 52 > > (please find screenshot attached) which seems to be the cause of the > > exception. Could you please help me o determine what may be the issue > with > > the parser? Is this some bug in AvroTypeInfo class or the AlignmentRecord > > class is somehow corrupted? > > > > Best Regards/Pozdrawiam, > > Filip Łęczycki > > > > >
