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<p class="MsoNormal">Hi. I am trying to update some gene models with new RNA data in maker3, using EvidenceModeler, and I am encountering the error below. I have tried various adjustments to my inputs, focusing on changes to the maker_evm.ctl file, the models-to-be-updated
gff file, and the new RNA input (trying it as both sequence and genome-aligned gff files). None of the many changes I’ve tried, other than just “turning off” EVidenceModeler entirely, has made a difference, so I thought I’d ask for some help. Any idea on what
might be happening here?<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Thanks,<o:p></o:p></p>
<p class="MsoNormal">John Martinson<o:p></o:p></p>
<p class="MsoNormal">USEPA<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Maker Google group email <a href="mailto:johnm50_01@yahoo.com">
johnm50_01@yahoo.com</a><o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">ERROR: No hit source {_HMM} in maker::auto_annotator<o:p></o:p></p>
<p class="MsoNormal">at /data/progs/maker3/maker/bin/../lib/maker/auto_annotator.pm line 2873.<o:p></o:p></p>
<p class="MsoNormal"> maker::auto_annotator::group_transcripts('ARRAY(0xe7b1788)', 'ARRAY(0x70110a0)', 'FastaSeq=HASH(0x6304360)', 'scaf101', 0, 'evm_abinit', '/data/maker/fourScafsGffBasedEvm.maker.output/fourScafsGffBas...', 'HASH(0x44634a0)') called
at /data/progs/maker3/maker/bin/../lib/maker/auto_annotator.pm line 1182<o:p></o:p></p>
<p class="MsoNormal"> maker::auto_annotator::annotate_genes('HASH(0x20f88800)', 'ARRAY(0x70110a0)', 'FastaSeq=HASH(0x6304360)', 'scaf101', 0, '/data/maker/fourScafsGffBasedEvm.maker.output/fourScafsGffBas...', 'HASH(0x44634a0)') called at /data/progs/maker3/maker/bin/../lib/Process/MpiChunk.pm
line 3894<o:p></o:p></p>
<p class="MsoNormal"> Process::MpiChunk::__ANON__() called at /data/progs/maker3/maker/bin/../lib/Error.pm line 415<o:p></o:p></p>
<p class="MsoNormal"> eval {...} called at /data/progs/maker3/maker/bin/../lib/Error.pm line 407<o:p></o:p></p>
<p class="MsoNormal"> Error::subs::try('CODE(0x123909e0)', 'HASH(0x6185338)') called at /data/progs/maker3/maker/bin/../lib/Process/MpiChunk.pm line 4277<o:p></o:p></p>
<p class="MsoNormal"> Process::MpiChunk::_go('Process::MpiChunk=HASH(0x7310030)', 'run', 'HASH(0x5193580)', 2, 4) called at /data/progs/maker3/maker/bin/../lib/Process/MpiChunk.pm line 340<o:p></o:p></p>
<p class="MsoNormal"> Process::MpiChunk::run('Process::MpiChunk=HASH(0x7310030)', 0) called at /data/progs/maker3/maker/bin/../lib/Process/MpiChunk.pm line 356<o:p></o:p></p>
<p class="MsoNormal"> Process::MpiChunk::run_all('Process::MpiChunk=HASH(0x7310030)', 0) called at /data/progs/maker3/maker/bin/../lib/Process/MpiTiers.pm line 287<o:p></o:p></p>
<p class="MsoNormal"> Process::MpiTiers::run_all('Process::MpiTiers=HASH(0x11058b50)', 0) called at /data/progs/maker3/maker/bin/../lib/Process/MpiTiers.pm line 287<o:p></o:p></p>
<p class="MsoNormal"> Process::MpiTiers::run_all('Process::MpiTiers=HASH(0x44a4dc0)', 0) called at /data/progs/maker3/maker/bin/maker line 680<o:p></o:p></p>
<p class="MsoNormal">--> rank=NA, hostname=d2626ujmartins4.aa.ad.epa.gov<o:p></o:p></p>
<p class="MsoNormal">ERROR: Failed while clustering transcripts into genes for annotations<o:p></o:p></p>
<p class="MsoNormal">ERROR: Chunk failed at level:2, tier_type:4<o:p></o:p></p>
<p class="MsoNormal">FAILED CONTIG:scaf101<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">ERROR: Chunk failed at level:6, tier_type:0<o:p></o:p></p>
<p class="MsoNormal">FAILED CONTIG:scaf101<o:p></o:p></p>
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