Leandro Lima

> i) whatever the upstream construction algorithm, downstream application needs some kind of awareness of path ambiguity if we know it can happen. in gramtools if i detect it at...

The kmer size on clustering is 7, by default... Reducing might solve some cases, but then it might bug some other cases that were not bugged, I guess...

yeah, smaller kmers also cause a lot more repeated kmers (e.g. we have 16384 7-mers, but 256 4-mers)... but the k-means clustering algorithm do take the k-mer multiplicity into account,...

Done in https://github.com/iqbal-lab-org/make_prg/commit/46534bccf4c6a347ef17707747da3e6021134686, testing in 4way

For some reason `racon` output a `N` in a consensus sequence...

For some reason I can't build containers from https://quay.io/repository/iqballab/make_prg , I am getting manifest issues. Anyway, it seems it has not created a container for the latest version, 0.4.0. I...

Yeah, I am still getting login issues. I still get the error message: "The e-mail address is already associated with an existing Quay account. Please log in with your username...

Something is messed up with quay.io and the red hat SSO. I think I had a quay.io account without a red hat account, and then they changed to login through...

I think in the readme, at least in the first container section: https://github.com/iqbal-lab-org/make_prg#container we should point to [biocontainers](https://quay.io/repository/biocontainers/make_prg?tab=tags&tag=latest) . In another section, we can point to [our quay](https://quay.io/repository/iqballab/make_prg) . The...

@iqbal-lab have you managed to run make_prg now? Do you want me to?