BFCounter only counts AAAAAAA kmers

[TrofimovAssya]

Hi! I am trying to quantify short kmers - so in this case 9mers. I used the following config:

./BFCounter count temp_${file}.fastq -k 9 -n 300000 -t 10 -o ${file}_bfoutput There are about 260000 possible 9mers so I set the -n to 300000.

Once I dump the binary output, I get

AAAAAAAAA 1006644076

So somehow it only added the AAAAAAAAA kmer but no others.

Any ideas what I'm doing wrong?

Thanks in advance for your support!