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

[Sajeet Haridas]

Thank you.
It seems to work with 2.25.

Sajeet

-----Original Message-----
From: Carson Holt [mailto:carsonhh at gmail.com] 
Sent: June-26-12 7:07 AM
To: Sajeet Haridas; maker-devel at yandell-lab.org
Subject: Re: [maker-devel] ERROR: Chunk failed at level 20

Have you tried the most current version, 2.25?

Thanks,
Carson


On 12-06-25 8:41 PM, "Sajeet Haridas" <sajeet at gmail.com> wrote:

>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
>
>
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