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More detailed logging infastructure #133

@EUdds

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@EUdds

Right now we have a loose combination of prints to the stdout and stderr stream with no real "long term" logging infrastructure to record what happens during runs. I'd like to overhaul this system to have 3 different levels of logging.

LOG - The "lowest" level of logging. Not meant to be shown to the user but end up in overall logs to give context
INFO - The "middle" level of logging. Can be shown to the user during a normal run.
ERR - The "highest" level of logging. Should appear differently to draw attention to this level over INFO

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