Inset chart output report

The inset chart output report is output with every simulation. It is a JSON-formatted file with the channel output results of the simulation, consisting of simulation-wide averages by time step. The channels in an inset chart are fully specified by the simulation type and cannot be altered without making changes to the EMOD source code. The file name is InsetChart.json. You can use the information contained in the file to create a chart, but EMOD does not automatically output a chart.

The file contains a header and a channels section.

Header

The header section contains the following parameters.

Parameter	Data type	Description
DateTime	string	The time stamp indicating when the report was generated.
DTK_Version	string	The version of EMOD used.
Report_Type	string	The type of output report.
Report_Version	string	The format version of the report.
Start_Time	integer	The time noted in days when the simulation begins.
Simulation_Timestep	integer	The number of days in each time step.
Timesteps	integer	The number of time steps in this simulation.
Channels	integer	The number of channels in the simulation.

Example

The following is a sample of an InsetChart.json file for a simulation with five time steps.

{
    "Header": {
        "DateTime": "Thu Dec 03 11:28:34 2015",
        "DTK_Version": "5738 HIV-Ongoing 2015/11/18 13:00:39",
        "Report_Type": "InsetChart",
        "Report_Version": "3.2",
        "Start_Time": 0,
        "Simulation_Timestep": 1,
        "Timesteps": 5,
        "Channels": 17
    },
    "Channels": {
        "Births": {
            "Units": "Births",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Campaign Cost": {
            "Units": "USD",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Cumulative Infections": {
            "Units": "",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Cumulative Reported Infections": {
            "Units": "",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Disease Deaths": {
            "Units": "",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Exposed Population": {
            "Units": "Exposed Fraction",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Human Infectious Reservoir": {
            "Units": "Total Infectivity",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Infected": {
            "Units": "Infected Fraction",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Infectious Population": {
            "Units": "Infectious Fraction",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Log Prevalence": {
            "Units": "Log Prevalence",
            "Data": [-10, -10, -10, -10, -10]
        },
        "New Infections": {
            "Units": "",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "New Reported Infections": {
            "Units": "",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Daily (Human) Infection Rate": {
            "Units": "Infection Rate",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Recovered Population": {
            "Units": "Recovered (Immune) Fraction",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        },
        "Statistical Population": {
            "Units": "Population",
            "Data": [
                900,
                900,
                900,
                900,
                900
            ]
        },
        "Susceptible Population": {
            "Units": "Susceptible Fraction",
            "Data": [
                1,
                1,
                1,
                1,
                1
            ]
        },
        "Waning Population": {
            "Units": "Waning Immunity Fraction",
            "Data": [
                0,
                0,
                0,
                0,
                0
            ]
        }
    }
}

Channels

The channels section contains the following parameters.

Parameter	Data type	Description
<Channel_Title>	string	The title of the particular channel.
Units	string	The units used for this channel.
Data	array	A list of the channel data at each time step.

When running malaria simulations, the following channels are included in the InsetChart.json file.

Channel	Description
Adult Vectors	The total number of adult vectors currently alive.
Air Temperature	The air temperature, in Celsius, on that day.
Births	The live births cumulative up to that day.
Campaign Cost	The cost of campaigns cumulative up to that day (set by the Cost_To_Consumer parameter).
Daily (Human) Infection Rate	The per-person daily rate of human infection (Human Infectious Reservoir divided by Statistical Population).
Daily Bites per Human	The average number of mosquito bites received per person on that day.
Daily EIR	The entomological inoculation rate (EIR), or the number of infected mosquito bites each person receives each day, on average.
Disease Deaths	The number of individuals whose death is attributed to malaria, cumulative up to that day.
Fever Prevalence	The fraction of the population currently with a fever.
Human Infectious Reservoir	The expected number of infections from human to vector, including human immunity and within-host interventions but not vector control interventions, if each human were bitten by one vector that day.
Infected	The fraction of the population currently infected.
Infectious Vectors	The fraction of vectors that are currently infected and contagious.
Land Temperature	The land temperature, in Celsius, on that day.
Log Prevalence	The logarithm of the population prevalence.
Mean Parasitemia	The geometric mean number of parasites per microliter of blood.
New Clinical Cases	The number of new clinical cases on that day.
New Diagnostic Prevalence	The percentage of currently infected that are clinically diagnosed with malaria.
New Infections	The number of individuals that got infected on that day.
New Severe Cases	The number of new severe cases of malaria on that day.
Newly Symptomatic	The number individuals that became symptomatic on that day
Parasite Prevalence	The fraction of infected individuals that test positive for parasites.
Rainfall	The amount of rainfall, in millimeters, on that day.
Statistical Population	The total number of individuals in the simulation on that day.
Symptomatic Population	The total number of individuals currently experiencing symptoms.