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Updates to measurement.py class methods

Evan Goetz requested to merge evan-goetz/pydarm:gpr-fit-range into master

This PR improves the organization of the measurement processing methods, outputs the residuals from stacked measuremnets and TDCF values, provides GPR limits to the fit interval, and can save the MCMC chain to HDF5 without an extra function call

Closes #160 (closed), #161 (closed), and #162 (closed)

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