0 reads loaded -> floating point exception

[Jorisvansteenbrugge]

Hi,

I am trying to run DBG2OLC on contigs produced by 10x genomics supernova, with Nanopore reads. However, at some point, the log prints "0 reads loaded." and then the program throws a floating exception: "[1] 2977621 floating point exception (core dumped) /home/joris/tools/DBG2OLC/compiled/DBG2OLC k 17 AdaptiveTh 0.0001 KmerCovTh 2".

Do you have any of what I might be doing wrong? I tried running the script with nanopore reads in fasta and fastq formats, but both yield the same result. Here you can find the full log DBG2OLC.log. Thank you in advance!

Joris

[juefish]

Had a similar issue. Mine was Illumina assembly + nanopore reads:

246158710 k-mers in round 1.
190511974 k-mers in round 2.
Scoring method: 3
Match method: 2
Loading long read index
0 reads loaded.
Floating point exception

[juefish]

Sorry, my command was as follows:

/opt/DBG2OLC/DBG2OLC k 17 AdaptiveTh 0.005 KmerCovTh 2 MinOverlap 20 Contigs [platanus scaffold fasta file] RemoveChimera 1 [ONT fasta file]

[juefish]

I resolved my issue. Was missing the "f" before the ONT fasta file. Sorry for any additional work for anyone