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  1. cybershake_investigation
    1. configs (Holds config files for acceptable station difference values)
    2. scripts (Contains scripts to call functionality)
      1. compare_csvs (Script to compare IMs from empirical models to cybershake results)
      2. gen_empirical (Script to generate empirical data for a cybershake_root structure, has different args to archived version)
      3. gen_empirical_archive (Script to generate empirical data for archived versions of cybershake)
      4. plot_fullavg_event_spectrum residual_spectra (Script to produce a single plot across all events at every site across the response spectrum)
      5. plot_fullavg_site_spectrum residual (Script to produce a single plot across all sites for every event across the response spectrum)
      6. plot_fullavg_spatialsite_residual_spectra (Script to produce a single plot that shows the log ratio residuals values across the NZ map for every event / site)
      7. plot_hist_residual (Script that shows the ratio value data in a histogram instead of a map view for each fault and or realisation)
      8. plot_single_site_residual (Script to plot a histogram of a single site / fault / IM showing each realisation ratio value)
      9. plot_single_site_spectrum (Script to plot pSA values for averaged simulation / empirical values and shows each realisation in grey lines for a single site / fault)
      10. plot_spatial_im (Script that plots the IM values directly for each IM / fault and or realisation on a map)
      11. plot_spatial_residual (Script that plots the ratio values between empirical and simulation for each fault and or realisation)
    3. empirical (Contains the functions to calculate empirical values for archived or cybershake run results)
    4. full_spectrumspectra (Contains the functions to plot response spectra with all events and sites)
    5. hist (Contains the functions to plot all histogram plots)
    6. ratios (Contains the function to compute the ratios between simulation and empirical results and test against acceptable station difference values)
    7. single_site (Contains the functions to plot single site residual histograms and pSA values)
    8. spatial (Contains the function to plot spatially the IM, ratio values and also a histogram of those spatial values)
    9. utils (Contains common functions used by multiple different scripts)
  2. Readme, setup, requirements, jenkinsfile etc.