Combine kaiko-denovo and kaiko-taxonomy

[ssarrafan]

Combine kaiko-denovo pipeline and kaiko-taxonomy pipeline with ease of use in mind Labeled at small (estimated at 2 days)

@pdpiehowski @picowatt please add subtasks or let me know and I can add them

[ssarrafan]

@picowatt can you re-assign to Camilo once he accepts GH invite please?

[CamiloPosso]

Pipelines combined in Kaiko_pipeline.

Modifications and additions (to do):

1) Use YAML files instead of .ini files.

2) Add ability to benchmark the time (cProfile library) and memory (memory-profiler) during a run.

3) Use s3path to read and write files, this will make cloud compatibility easier.

4) Make a readme

[ssarrafan]

@CamiloPosso can this issue be closed?

[CamiloPosso]

Almost, I will close it today, just finishing up changes to path handling.

[ssarrafan]

Ok thanks @CamiloPosso I'll move to the current sprint if not closed by tomorrow.

[ssarrafan]

@CamiloPosso what's the status of this issue?

[CamiloPosso]

@ssarrafan I took care of the 4 changes I commented above. The readme also goes into how to set up the database files, so I would say we can close this one.

I'm working on unit tests to then updates the python version we use.