Hello All,
We are now using snapshot-2012-06-07 for SNP export per Aaron's suggestion. We
run this on Linux. We successfully exported the SNP file before so we decided
to accelarate a bit and ran 60 genomes.The backbone file(.xmfa) was created
with no problem. However SNP export failed due to
ArrayIndexOutOfBoundsException error. Please see below:
"java.lang.ArrayIndexOutOfBoundsException: genome 1656-2.fna position 3940615
at org.gel.mauveXMFAAlignment.getLCB(unknown Source)
at org.gel.mauveXMFAViewerModel.getLCBIndex(unknown source)
at org.gel.mauve.analysis.SnpExporter.getSNPs(unknown source)
at org.gel.mauve.analysis.SnpExporter.getSNPs(unknown source)
at org.gel.mauve.analysis.SnpExporter.exporter(unknown source)
at org.gel.mauve.analysis.SnpExporter.main (unknown source)"
It seems like the last coordinate in xmfa file for Acinetobacter baumannii
1656-2 is 1:3911977-3940614. I am not sure where 3940615 comes from and how to
correct this errror.
Thank you so much for your time in advance!
Fatma
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