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Fail in EVM #646
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What version of funannotate? if it is not latest release please check with latest release to see if it is still an issue. This reminds me of an error that was fixed awhile ago. |
Hi Jon |
Hi Jon,
I can not figure out what it happened. |
Hi Jon, |
Hmm, it seems that the SQLite backend of SeqIO.index_db() has failed. I'll try to change this to SeqIO.index() which works differently, pushing to master in a minute after I run through tests. |
Hi Jon, |
Hi Jon,
When i run 'funannotate predict' for same of my assembly data, I found the process failed during EVM:
[Oct 01 03:34 AM]: Summary of gene models passed to EVM (weights):
Source Weight Count
Augustus 1 2653
Augustus HiQ 2 98
GlimmerHMM 1 3189
snap 1 3059
Total - 8999
[Oct 01 03:34 AM]: EVM: partitioning input to ~ 35 genes per partition using min 1500 bp interval
Traceback (most recent call last):
File "/home/intact/miniconda3/envs/funannotate/lib/python3.7/site-packages/funannotate/aux_scripts/funannotate-runEVM.py", line 484, in
partitions=args.no_partitions)
File "/home/intact/miniconda3/envs/funannotate/lib/python3.7/site-packages/funannotate/aux_scripts/funannotate-runEVM.py", line 224, in create_partitions
splitTup, idx = getBreakPoint(v, loc, direction='reverse', gap=interval)
TypeError: cannot unpack non-iterable bool object
[Oct 01 03:34 AM]: Evidence modeler has failed, exiting
the command I used is "funannotate predict -i DE-Pool-2-D04.mask -o DE-Pool-2-D04_funannotate --augustus_species daldinia_eschscholizii -s Daldinia_eschscholizii --cpus 12"
This is work for same data but not for others.
Best
Hongyu
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