mash sketch outputs reference.msh with only one row

[Valentin-Bio-zz]

Hello I was using mash before with a set of paired end reads, the issue is that now I'm using the -r flag as recommended when sketching reads (metagenomic reads), this is the code that I use: mash sketch -m 2 -r -o reference *.fa and when I run mash info reference.msh I got the following:

Header:
Hash function (seed): MurmurHash3_x64_128 (42)
K-mer size: 21 (64-bit hashes)
Alphabet: ACGT (canonical)
Target min-hashes per sketch: 1000
Sketches: 1

Sketches:
[Hashes] [Length] [ID] [Comment]

1000 10789159071 FP.BAC4A_ATATCTCG-ACTAAGAT_L00M.130bp_5prime.fa A00419:387:HVVLYDSXY:2:1101:2736:1000 1:N:0:ATATCTCG+NCTAAGAT

Only got 1 sketched readset.

• the files that are bieng parsed are 93 in fasta format.

what can be happening? does the -r option accept only 1 library of reads as entry and the 92 lefting are omitted for sketching?

Thanks for reading :)

[ondovb]

It is sketching all the reads together, but the first file is used for the ID and comment (see -I and -C). To create separate sketch files for each read set, you will need to invoke mash for each sketch (see #71).