Add logging

[cberys]

Add logging specifically for changes made to files on read in, but I would guess also in general. Please edit or add to this issue.

[DocOtak]

Clarification, these are log messages e.g. to a terminal about what is going on internally?

[cberys]

I think yes for the use stated, but there might have been other uses as well. I have a note from the meeting to make this issue but I wasn't sure on the specifics.

[DocOtak]

Lots of debug logging in the fast reader branch so far, so this will definitely happen as I just need to leave them all in rather than remove. It's using the python logging module, so you need to attach a logging handler to it to get output if using the API directly.

[DocOtak]

@cberys do you want more logging message in specific places?

[cberys]

@DocOtak I believe there has been a ton of improvement to error messages for the user since this issue was made.(I think in the beginning there was basically none or very limited) I don't know if you want to close the issue or leave it open for when specific requests come up and rename to "logging wish list" or whatever - up to you.

Additionally - maybe create some instructionals on using the logging module and what is available?