Mapping with Diamond v2 seems slow

[ganiatgithub]

Hi @fasnicar

It's related to a couple of posts I made link1 link2, and also a post from you on biobakery forum. I was wondering if down grading diamond to 2.0.15 or lower versions will help? Will lower versions of Diamond be compatible with Phylophlan version 3.0.67.

Many thanks.
Gaofeng

[fasnicar]

Dear Gaofeng, PhyloPhlAn is compatible with earlier versions of Diamond, the problem is that earlier versions were faster because of a bug, so your results might be biased as not all hits will be reported by Diamonds and hence your phylogenies could result incomplete.

I hope this helps,
Francesco