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ntoda03 / NLGenomeSweeper

Identification of NBS-LRR genes in genomic sequence
MIT License
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A problem [W::fai_fetch] Reference :- not found in fasta file, return empty sequence #9

Closed 1835033964 closed 2 years ago

1835033964 commented 2 years ago

Hi Nicholas, Thank you for developing such a nice tool to search for NB-ARC domains.Now I am facing a problem like this,

These are inputs. Both of them print the same output(the screenshot)

NLGenomeSweeper -genome TAIR_TNLs.fa NLGenomeSweeper -genome pfam_NB-ARC.fa -overwrite T

65CABF5A9F5ADA0C5C95EED4DA597BD3

Then I check the NLGenomeSweeper.err for information,this is the content:

82570973585B8435E174AFEC9EE81B01

Do you have any ideas to help me to fix the problem.

Thank you, Lan

ntoda03 commented 2 years ago

Hi, this is most likely that it doesn't find any candidates. I've at least made the error message more informative. It looks like you're running with genes or domains as input. The program is meant to handle large genomic regions and input so was never tested to run like that.