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Unexpected mapping with or without -X #146

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baozg opened this issue Jun 21, 2022 · 1 comment
Open

Unexpected mapping with or without -X #146

baozg opened this issue Jun 21, 2022 · 1 comment

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@baozg
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baozg commented Jun 21, 2022

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

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@baozg @AndreaGuarracino