adding logging to io.genomio.fasta.process

[vsitnik]

No description provided.

[vsitnik]

Or we can just replace logger with logging and do something like

logging = None
import logging
def ...
    logging.info(...)

def main:
    ...
    logging = setup_logging(...)
    ...    

Or make a more cruel thing.
Just treat import logging as definition of a global var. So just

#  logging = None
import logging

[JAlvarezJarreta]

I was not happy with the logger approach either, so that is why I have opted for accessing the logging.root instead in my PR.

[vsitnik]

I like the reassigning of logging way,
because in this case you're allowing the module to be used/imported from the outside without calling main function and setup we have in it.
So if you use main -- you define your own logger (however prettified) and assign it to global logging (replacing it, basically).
But if you import this module from outside, you preserve logging default settings (perhaps, already modified by the calling/upstream code).

In this case this module itself doesn't import other models with logging.
I think, it's worth to update the root logger to propagate changes downstream, instead as in your PR !207.

[MatBarba]

We have the new logging handler in ensembl-py now, this PR needs to use that one instead

[vsitnik]

replaced with #222