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isovic / racon

Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr.214270.116 Note: This was the original repository which will no longer be officially maintained. Please use the new official repository here:
https://github.com/lbcb-sci/racon
MIT License
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error: unequal lengths in sequence and overlap file for sequence 2525deca-ece8-4652-8429-19ca02a0aeca! #239

Open setshabaTaukobong opened 1 year ago

setshabaTaukobong commented 1 year ago

Hi there, I am getting the following issue after running racon:

[racon::Polisher::initialize] loaded target sequences 3.574446 s [racon::Polisher::initialize] loaded sequences 33.367121 s [racon::Overlap::transmute] error: unequal lengths in sequence and overlap file for sequence 2525deca-ece8-4652-8429-19ca02a0aeca! I typed the following command for racon: racon -m 8 -x -8 -g -6 -w 500 -t 4 /home/staukobong/data/sample_id.trimmed.fastq /home/staukobong/data/sample_id.sam /home/staukobong/data/Assembled/00-assembly/draft_assembly.fasta > sample_idRac.fasta

And I used minimap2 to map my reads to the assembled genome: minimap2 -a -t 4 /home/staukobong/data/Assembled/00-assembly/draft_assembly.fasta /home/staukobong/data/sample_id.trimmed.fastq > sample_id.sam

Could I please get some assistance on this?

setshabaTaukobong commented 1 year ago

I used Flye to do the assembly and using Nanopore fastq reads