Update and tidy #6
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… into its own class method get_priors
…so duplications are made it the posterior is updated
Revert "updated .gitignore to not track things in .idea/ folders (pycharm)" This reverts commit 00033fe.
Revert "updated .gitignore to not track things in .idea folders (pycharm)" This reverts commit 1693fc3.
…ched .gitignore' and then re add and commit
…t function so that the threshold (mean) and sensitivity (sigma) can be updated.
…ss cost function can be updated.
…ar. calibrate_spectra function return calibrated spectra as well as a smooth, linear, and continuous wavelength axis.
…as not caught in the test lines within calibrate.py as wave was the global variable of wavelengths.
…as been made an object attribute and hence (convolution_tolerence) editable (no longer hard coded in as 1e-2).
…ow evaluated on the wavelength forward model axis and then pixel normalised. ValueError check has been added to ensure that the instrument function was pixel normalised.
… FileNotFoundError if check is failed.
…line shape are saved in the object.
…ved during wavelength calibration.
…ion. Correction of linear interpolation of impurity power rates and made consistent with the linear interpolation of TECs line ADAS406Lines class.
…t feature to ensure that the correct order is enforced even if the ions are jumbled in the impurity_indicies_dict.
…he ratio of post and pre convolution area.
… updates in matplotlib.pyplot.
…losses in neutral profile calculation
…e and raises an error if the population is too small for the algorithm breaks again.
… order of magnitude.
… not shift in the ne profile.
… spacial separation of excitation and recombination)
…om ADAS. Can be switched on and off by boulean in PlasmaLine self.constar and defaults to True. When True the impurity electron profile is the same shape as the electron density and ADAS406Lines checks this boulean when calculating the emission.
…ed and extrapolates to a bolometry measurement including all charge states of modelled elements. This can becompared to a reference to act as a prior.
…n bal and the rates. This allows custon references to data to be put in the adas_line_data dict
… and uses baysar to make spectra.
…till needs some formatting)
…ofiles in SyntheticSpectra.
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