waveygang/wfmash

Unexpected mapping with or without -X

Opened this issue · 1 comments

baozg commented

Hi,

I use two different parameters to map 3 haplotypes to a ref, but the behavior of wfmash is strange. All the ref and query name are different.

wfmash -m -X -t 64 -s 10k -p 90 -n 3 ref.fa.gz query.fa.gz
E-line-DM-p90s10k-wx paf

wfmash -m -t 64 -s 10k -p 90 -n 3 ref.fa.gz query.fa.gz
E-line-DM-p90s10k paf

AndreaGuarracino commented

@baozg, is it still true with the latest wfmash's versions? If yes, could you please share an example to reproduce this behavior?