Sorry about the Output file being empty. I've uploaded a new output. https://www.dropbox.com/s/usjvd512th7eu7o/output_log.txt?dl=0
But to further describe my problem, I clean installed KSP 1.3, and I will build a ship and launch it. I can see that oxygen, etc is loaded onto the vessel, however, there is no consumption. So in a command pod that should only have 3 days of supplies I can fly forever. I am not in atmosphere either. I'm in deep space. When I look at the GUI to see, how much time I have left remaining in supplies. I've provided a screenshot below.