Closed adamant-pwn closed 6 months ago
Hi! This problem is due to 2 different things:
I just fixed the second problem, but probably all you want is to pass the flag -s 1
to ggcat to lower the cutoff.
Same problem here. It would be nice to print a warning in case the fasta file is empty.
Hi there! In https://github.com/jermp/sshash/pull/39, @jermp suggested that I use ggcat to produce input datasets for sshash.
I tried using ggcat, but unfortunately something seems wrong:
This is using se.ust.k31.fa.gz as an input dataset for ggcat. Ultimately, I want to apply ggcat to compute eulertigs of Homo_sapiens.GRCh38.dna.toplevel.fa.gz for
k=127
, but with that dataset I too end up havingUnfinished stream
errors, and the resulting file is much smaller than I anticipate. Could you please advice if I'm doing anything wrong here?