[maker-devel] ERROR: Chunk failed at level 20

[Sajeet Haridas]

Hello,

I am running Maker 2.10 on two versions (using two assembly programs) of a
fungal genome (~33Mbp). While one completes successfully, the other does
not. One of the scaffolds (out of 65) throws the following error.

------------- EXCEPTION: Bio::Root::Exception -------------
MSG: Calling translate without a seq argument!
STACK: Error::throw
STACK: Bio::Root::Root::throw
/usr/local/share/perl/5.10.1/Bio/Root/Root.pm:368
STACK: Bio::Tools::CodonTable::translate
/usr/local/share/perl/5.10.1/Bio/Tools/CodonTable.pm:409
STACK: PhatHit_utils::_adjust
/opt/maker_2.10/bin/../lib/PhatHit_utils.pm:880
STACK: PhatHit_utils::adjust_start_stop
/opt/maker_2.10/bin/../lib/PhatHit_utils.pm:776
STACK: maker::auto_annotator::load_transcript_struct
/opt/maker_2.10/bin/../lib/maker/auto_annotator.pm:1808
STACK: maker::auto_annotator::group_transcripts
/opt/maker_2.10/bin/../lib/maker/auto_annotator.pm:2163
STACK: maker::auto_annotator::annotate_genes
/opt/maker_2.10/bin/../lib/maker/auto_annotator.pm:877
STACK: Process::MpiChunk::_go
/opt/maker_2.10/bin/../lib/Process/MpiChunk.pm:2159
STACK: Process::MpiChunk::run
/opt/maker_2.10/bin/../lib/Process/MpiChunk.pm:257
STACK: Process::MpiTiers::run_all
/opt/maker_2.10/bin/../lib/Process/MpiTiers.pm:193
STACK: /opt/maker_2.10/bin/maker:276
-----------------------------------------------------------

FATAL ERROR
ERROR: Failed while clustering transcripts into genes for annotations!!

ERROR: Chunk failed at level 20
!!


Any help appreciated.

Thank you,

Sajeet