[maker-devel] August failing for one contig only during Maker run

[Aditi Rambani]

Hello,


Maker successfully annotated the genome but keeps failing for one contig with error message attached below. Can you please help me troubleshoot this ? There is no issue with augustus for rest of the contigs.


Thank you


Aditi


#--------- command -------------#
Widget::augustus:
~/augustus-3.2/bin/augustus --species=Cxxx --strand=forward --UTR=off --hintsfile=/tmp/maker_dSn0ps/0/71_0.26253049-26257472.Cxxx.auto_annotator.xdef.augustus --extrinsicCfgFile=/data/home/srs57/programs/augustus-3.2/config/extrinsic/extrinsic.MPE.cfg /tmp/maker_dSn0ps/0/71_0.26253049-26257472.Cxxx.auto_annotator.augustus.fasta > /tmp/maker_dSn0ps/0/71_0.26253049-26257472.Cxxx.auto_annotator.augustus
#-------------------------------#
Sampling error in intron model. state=14 base=4422

~/augustus-3.2/bin/augustus: ERROR
Tried to sample from empty list.

Sampling error in intron model. state=14 base=4422
~/augustus-3.2/bin/augustus: ERROR
Tried to sample from empty list.

ERROR: Augustus failed
--> rank=NA, hostname=xxx
ERROR: Failed while annotating transcripts
ERROR: Chunk failed at level:1, tier_type:4
FAILED CONTIG:Contigxxx

ERROR: Chunk failed at level:6, tier_type:0
FAILED CONTIG:Contigxxx

examining contents of the fasta file and run log


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