config.whd_noDrug_McLendon.json

{
    "simulation" : {
        "schema_file_name" : "schema.config.json",
        "total_steps" : 1500,
        "total_population" : 1000,
        "title": "WHD model dev phase 1",
        "batch_mode" : true
    },

    "whd" : {
        "whd_level" : 0,
        "II50" : 2000000000,
        "pmf" : 10.0,
        "gamma": 0.75,
        "maxcyt": 0.25,
        "kfever": 1.115,
        "kfever_multiplier": 0.025,
        "memory": 0.35,
        "decay": 150,
        "switchrate": 0.03,
        "immunestack": 2.0,
        "switcheffect": 22.0,
        "maxinit": 50000,
        "etac": 5.0,
        "etah": 3.0,
        "x50ab": 50000000000,
        "x50ab_multiplier": 0.1,
        "kab": 0.125,
        "kab_multiplier": 0.01,
        "abprod": 1.0,
        "abdecay": 20.0,
        "killcyt": 3.15,
        "killab": 2.3,
        "killab_multiplier": 0.01,
        "kmsp": 0.0853,
        "Cmer": 0.358,
        "kg_divisor": 9,
        "kmg_divisor": 10,
        "kgam": 0.01,
        "kgametocyte": 0.01,
        "pt": 2000000000,
        "C50g": 0.005,
        "gam50": 50000,
        "dosingpk": 4000.0,
        "dosingpip": 960.0,
        "killratedha": 3.25,
        "killratepip": 1.75,
        "ce50dha": 300.0,
        "ce50pip": 450.0,
        "hdha": 3.0,
        "hpip": 3.0,
        "npk": 9,
        "npip": 6,
        "p0_initial_val": 20000,
        "with_drug": false,
             
        "transition_matrix" : {
            "Jpk" : {
                "CL": 3.2500,
                "V2": 5.3750,
                "THETA_3_divident": 0.982,
                "THETA_3_divisor": 24,
                "NN": 7.0
            },

            "Jpip" : {
                "ACL2": 0.75,
                "M_WE2": 54,
                "AGE2": 25,
                "WT2": 54,
                "THETA2_1": 1329.6,
                "EM502": 0.575,
                "HILL2":  5.51,
                "Q12": 7440.0,
                "Q22": 2520.0,
                "V22": 69840.0,
                "V32": 117840.0,
                "V42": 741600.0,
                "THETA2_7_divident": 2.11,
                "THETA2_7_divisor": 24,
                "NN2": 2.0
            }
        },

        "P0_related_metrics" : {
            "p0_patent_indicator": 50000000,
            "p0_peak_divisor": 5000000,
            "infection_min_threshold": 100
        }
        
    },

    "within_host" : {
        "init_file" : {
            "name": "data/agestructs/mmc_wp2/rev17_a4_cfv395/20200220232502_agestruct.csv",
            "delimiter" : "t"
        }
    },
    "drug" : {
        "failure_if_clinical_on_day" : 28

    }
    
}