Add new member variables to Reporting structure

JoRussell-IDM / updated_infection_and_immunity

malaria_two_pt_oh

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Add new member variables to Reporting structure #26

Open JoRussell-IDM opened 5 years ago

JoRussell-IDM commented 5 years ago

Variables to be reported on by adding to dll that produces MalariaPatientReport.json

Number of current infections Number of cleared infections (any) Pyrogenic Threshold value All Immune modifier arguments (ie input numbers, untransformed) All immune modifier values (results of transformation) Combined modifier values

Check to see what member variable is being piped to asexual density in the report! (IRBCs seem to be subject to susceptibility filters, want to make sure were not missing them)

JoRussell-IDM commented 5 years ago

For Jon:

Build an analyzer framework that plots all member variables of interest in a sim/individual.

DGoes-IDM commented 5 years ago

The route for "true asexual density" is total density calculated by adding values from all waves at present time (m_parasite_density).

DGoes-IDM commented 5 years ago

I've added the following channels to the patient report, where each is an array updated each cycle:

active_infections
cleared_infections
pyrogenic_threshold
cumulative_exposure
recent_exposure
malaria_free_interval
strain_diversity
age_modifier
cumexp_modifier
recexp_modifier
free_interval_modifier
strain_diversity_modifier
ppp_scale_factor
tm_scale_factor