Add option for bandage plots in report

[osilander]

Is your feature related to a problem?

Not related to a problem

Describe the solution you'd like

An option (or default) to output the gfa file and a Bandage plot of the gfa file for a quick visual summary of the assemblies (perhaps in the full summary report). Alternatively, just the Bandage plot.

Describe alternatives you've considered

I've tried copying and renaming the assembly_graph.gfa output files from flye into the output dir, as it's possible to then make the Bandage plot. The .gfa files in the work directory aren't named by barcode so it's not possible to take them from there.

Additional context

No response

[cjalder]

Hi @osilander sorry for the tardiness, this one slipped under the radar. We are looking at doing a refresh on our summary reports to better highlight quality/statistics of the assemblies, so we'll look into this as well! Keep an eye out on future release .

[warthmann]

along similar lines, I am unable to even find those gfa files in my output. I ran it this week, and in the "output" directory of my bacterial assembly run I cannot see any gfa files.