Have cli flags take precedence over the config file #52
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Addresses: #51 , #48 and #25
This PR changes the way that spectroperf reads in the config flags and file to make the flag settings take precedence over the config file. It also moves where the config struct is defined so that we can access the struct from the workload package allowing us to pass the whole config to workloads, simplifying method signatures. Finally there are some small improvements to the logging.