Input error: -k cannot be less than 14 or more than 14

[ksahlin]

Hi,

I'm running

deSALT aln path/to/index  ont_human.fq  -d 10 -s 2 -k 14 -t 32  -o reads.sam  -f /tmp/tmptjksjwp5/desalt_temp_prefix

And get the following output

[Main] deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
Input error: -k cannot be less than 14 or more than 14

[ydLiu-HIT]

Hi,

you should run with the following command:

deSALT aln path/to/index ont_human.fq -d 10 -s 2 -l 14 -t 32 -o reads.sam -f /tmp/tmptjksjwp5/desalt_temp_prefix

replace -k with -l -k is the RdBG index kmer length, -l is the seeding kmer length which is less than index kmer.

[ksahlin]

Ok great, that's what I was looking for!