Cameron Reid

Gubbins can't find dendropy

2

I am trying to run gubbins on an alignment from snippy (have tried v3, with python3.5, and v4, with python 3.6) however I keep getting an error saying "no module...

Add chopper to supercede Nanolyse

7

### Description of feature [Filtlong]() and [Nanolyse]() are very time-consuming steps in the process for long-read/hybrid datasets, mainly because neither of them can be multi-threaded. [Chopper]() combines [Nanofilt]() and [Nanolyse]()...

conda package doesn't have pplacer_threads option?

2

Hi Rhys, I'm using aviary via the conda package and I've been having gtdbtk run out of memory with the default setting of 48 threads for pplacer so I tried...

refine_metabat2 running out of memory

8

Hi Rhys, I'm running aviary recover via slurm. I'm submitting the pipeline as a single job which then sends off each rule as a new job. The rule refine_metabat2 is...