EmissionNoise

Updated the functions in which the emissionNoise is used.
This introduced a bug in the program where the fitting is
failing.
Bug Fix:

The order in which the parameters were being initialized in
the emissionNoise function was incorrect.  Fixed by looking at
the reported values.
refractory

changed the name of the struct in PhaseofEmission1dNum from pStructure to
pStruct.
renamed file
Rename files

renaming the models structure files
layer

Create layer structures and modelSystem structures to organize data.
moved thermal_models files and created folder
moved thermal_models files and created folder
0.028927244	0.051512676	0.1999998	0.050716313	0.11716716
Merge branch 'master' of bitbucket.org:raymondvaldes/phdresearch

Conflicts:
	numSimulations/Numerical_PhaseOfEmission.h
Parameter Estimation Settings

Created structure to store the parameter estimation settings
updated structure for parameter estimation settings
updated calibrationsweep to reflect changes to parameter estimation settings
updated calibrationsweep to reflect changes to parameter estimation settings
Merge branch 'master' of bitbucket.org:raymondvaldes/phdresearch
Implementing parameter estimation settings
physical model namespace

Create a physicalModel namespace to hold the descriptions of my model.
0.028927244	0.051512676	0.1999998	0.050716313	0.11716716
Deleted deprecated function

removed discretize_1d
removing unused arguments