Comparing scaffolds; include or not?
I have implemented pyANI to compare different scaffolds classified as the same species. However, this often does not seem to work and results in a crashing pipeline (at least when snakemake is not used with the --keep-going
parameter). I think it is better to either:
- remove this part, or
- replace it by something that works.
The pipeline should not crash by default and a program that more often fails than not is not very useful.
Note: this is not the fault of the program, but of the way it is implemented in the pipeline right now.