unequal length error

[iremdnzl]

Hi, I have multiple samples and I'm following the same scripts for all of them. Just one sample gave this error:

This is minimap2:
minimap2 -a -x map-ont /media/idnzl/HDD/REFERENCES/GCA_023856395.1_Psun_UM_1.1_genomic.fa all_reads.fastq > Sample_alignment.sam

This is what I run:
racon -m 8 -x 6 -g -8 -w 500 -t 4 all_reads.fastq Sample_alignment.sam /media/idnzl/HDD/REFERENCES/GCA_023856395.1_Psun_UM_1.1_genomic.fa > RACON/racon_Sample.fasta
This is what I get:

[racon::Polisher::initialize] loaded target sequences 11.305067 s
[racon::Polisher::initialize] loaded sequences 2.537877 s
[racon::Overlap::transmute] error: unequal lengths in sequence and overlap file for sequence ec458864-7c3c-492e-afa8-2a9f7fbe5bef!

Do you have any suggestions?
Cheers,

[rvaser]

The error unequal lengths indicates that the FASTA/Q files you used in minimap2 and the ones passed to racon have differences (offending read is ec458864-7c3c-492e-afa8-2a9f7fbe5bef). Did you by any chance change the files between minimap2 and racon runs or passed the wrong input?

Best regards,
Robert