SeqToTBTHDF5Plugin -- java.nio.BufferOverflowException in tassel4

[Vinod Kumar Valluri]

Hi Everyone,
 
 I am facing problem with SeqToTBTHDF5Plugin, when it is writing to TagsByTaxa file in tassel4 .

 Command i used is: ../tassel4/run_pipeline.pl  -fork1 -SeqToTBTHDF5Plugin -i fastq -k Samplesheet_key.txt -e ApeKI -o tbt/pgp.h5 -L tbt/pgp.log -t mergedTagCounts/PGP.cnt -endPlugin -runfork1

Key file:
FlowCellId    Lane    Barcode    DNASample    LibraryPlate    Row    Column    LibraryPrepID
C8G09ACXX    5    TGGCGA    PL99010    PP_PL01    F    6    2112201711
C8G09ACXX    5    GAATCT    PL99010    PP_PL01    G    6    2112201711
C8G09ACXX    5    TGGCGGA    PL99010    PP_PL01    H    6    2112201711

 It is giving error as below,

Total Reads:160000000 goodReads:11245190 goodMatched:11245190
Total Reads:161000000 goodReads:11326884 goodMatched:11326884
Total Reads:162000000 goodReads:11408906 goodMatched:11408906
Timing process (writing TagsByTaxa file)...
Exception in thread "Thread-0" java.nio.BufferOverflowException
    at java.nio.Buffer.nextPutIndex(Buffer.java:521)
    at java.nio.HeapByteBuffer.put(HeapByteBuffer.java:169)
    at net.maizegenetics.gbs.tagdist.TagsByTaxaByteHDF5TaxaGroups.encodeBySign(TagsByTaxaByteHDF5TaxaGroups.java:194)
    at net.maizegenetics.gbs.tagdist.TagsByTaxaByteHDF5TaxaGroups.encodeBySign(TagsByTaxaByteHDF5TaxaGroups.java:180)
    at net.maizegenetics.gbs.tagdist.TagsByTaxaByteHDF5TaxaGroups.addTaxon(TagsByTaxaByteHDF5TaxaGroups.java:130)
    at net.maizegenetics.gbs.pipeline.SeqToTBTHDF5Plugin.writeTBT(SeqToTBTHDF5Plugin.java:338)
    at net.maizegenetics.gbs.pipeline.SeqToTBTHDF5Plugin.matchTagsToTaxa(SeqToTBTHDF5Plugin.java:263)
    at net.maizegenetics.gbs.pipeline.SeqToTBTHDF5Plugin.performFunction(SeqToTBTHDF5Plugin.java:74)
    at net.maizegenetics.plugindef.AbstractPlugin.dataSetReturned(AbstractPlugin.java:201)
    at net.maizegenetics.plugindef.ThreadedPluginListener.run(ThreadedPluginListener.java:29)

Plz help me to sort out this error.

[Vinod Kumar Valluri]

Plz help me sort out this issue

[Lynn Carol Johnson]

Can you run with tassel5?  We are not debugging the older versions.

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