<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<scenario xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" analysisNo="0" name="month 4" schemaVersion="26" wuID="0" xsi:noNamespaceSchemaLocation="scenario_26.xsd">
  <demography maximumAgeYrs="90" name="Ifakara" popSize="1000">
    <ageGroup lowerbound="0">
      <group poppercent="3.474714994" upperbound="1"/>
      <group poppercent="12.76004028" upperbound="5"/>
      <group poppercent="14.52151394" upperbound="10"/>
      <group poppercent="12.75565434" upperbound="15"/>
      <group poppercent="10.836323739999999" upperbound="20"/>
      <group poppercent="8.393312454" upperbound="25"/>
      <group poppercent="7.001421452" upperbound="30"/>
      <group poppercent="5.800587654" upperbound="35"/>
      <group poppercent="5.102136612" upperbound="40"/>
      <group poppercent="4.182561874" upperbound="45"/>
      <group poppercent="3.339409351" upperbound="50"/>
      <group poppercent="2.986112356" upperbound="55"/>
      <group poppercent="2.555766582" upperbound="60"/>
      <group poppercent="2.332763433" upperbound="65"/>
      <group poppercent="1.77400255" upperbound="70"/>
      <group poppercent="1.008525491" upperbound="75"/>
      <group poppercent="0.74167341" upperbound="80"/>
      <group poppercent="0.271863401" upperbound="85"/>
      <group poppercent="0.161614642" upperbound="90"/>
    </ageGroup>
  </demography>
  <monitoring name="Quarterly Surveys">
    <SurveyOptions>
      <option name="nHost" value="true"/>
      <option name="nInfect" value="true"/>
      <option name="nExpectd" value="true"/>
      <option name="nPatent" value="true"/>
      <option name="totalPatentInf" value="true"/>
      <option name="nTransmit" value="true"/>
      <option name="totalInfs" value="true"/>
      <option name="nNewInfections" value="true"/>
      <option name="innoculationsPerAgeGroup" value="true"/>
      <option name="Vector_EIR_Input" value="true"/>
      <option name="Vector_EIR_Simulated" value="true"/>
      <option name="Vector_Nv" value="true"/>
      <option name="Vector_Ov" value="true"/>
      <option name="Vector_Sv" value="true"/>
    </SurveyOptions>
    <surveys detectionLimit="40">
      <surveyTime>18</surveyTime>
      <surveyTime>37</surveyTime>
      <surveyTime>55</surveyTime>
      <surveyTime>73</surveyTime>
      <surveyTime>91</surveyTime>
      <surveyTime>110</surveyTime>
      <surveyTime>128</surveyTime>
      <surveyTime>146</surveyTime>
      <surveyTime>164</surveyTime>
      <surveyTime>183</surveyTime>
      <surveyTime>201</surveyTime>
      <surveyTime>219</surveyTime>
      <surveyTime>237</surveyTime>
      <surveyTime>256</surveyTime>
      <surveyTime>274</surveyTime>
      <surveyTime>292</surveyTime>
      <surveyTime>310</surveyTime>
      <surveyTime>329</surveyTime>
      <surveyTime>347</surveyTime>
      <surveyTime>365</surveyTime>
      <surveyTime>383</surveyTime>
      <surveyTime>402</surveyTime>
      <surveyTime>420</surveyTime>
      <surveyTime>438</surveyTime>
      <surveyTime>456</surveyTime>
      <surveyTime>475</surveyTime>
      <surveyTime>493</surveyTime>
      <surveyTime>511</surveyTime>
      <surveyTime>529</surveyTime>
      <surveyTime>548</surveyTime>
      <surveyTime>566</surveyTime>
      <surveyTime>584</surveyTime>
      <surveyTime>602</surveyTime>
      <surveyTime>621</surveyTime>
      <surveyTime>639</surveyTime>
      <surveyTime>657</surveyTime>
      <surveyTime>675</surveyTime>
      <surveyTime>694</surveyTime>
      <surveyTime>712</surveyTime>
      <surveyTime>730</surveyTime>
    </surveys>
    <ageGroup lowerbound="0">
      <group upperbound="99"/>
    </ageGroup>
  </monitoring>
  <interventions name="Full Set">
    <descriptions>
      <vaccineDescription vaccineType="TBV">
        <decay L="0.0" function="constant"/>
        <efficacyB value="1"/>
        <initialEfficacy value="1"/>
      </vaccineDescription>
    </descriptions>
    <continuous>
      <vaccine coverage="1" targetAgeYrs="0.0137"/>
    </continuous>
    <timed>
      <intervention time="67">
        <!-- eliminate current infections -->
        <MDA coverage="1"/>
        <!-- prevent further infections -->
        <vaccinate coverage="1"/>
        <!-- clear past & current mosquito infections -->
        <uninfectVectors/>
      </intervention>
      <intervention time="68">
        <MDA coverage="1"/>
        <uninfectVectors/>
      </intervention>
      <intervention time="69">
        <MDA coverage="1"/>
        <uninfectVectors/>
      </intervention>
      <intervention time="70">
        <MDA coverage="1"/>
        <uninfectVectors/>
      </intervention>
      <intervention time="71">
        <MDA coverage="1"/>
        <uninfectVectors/>
      </intervention>
      <intervention time="72">
        <MDA coverage="1"/>
        <immuneSuppression coverage="1"/>
        <uninfectVectors/>
      </intervention>
      <intervention time="73">
        <insertR_0Case/>
      </intervention>
    </timed>
  </interventions>
  <healthSystem>
    <ImmediateOutcomes name="no treatment">
      <drugRegimen firstLine="ACT" inpatient="QN" secondLine="ACT"/>
      <initialACR>
        <ACT value="0.98"/>
        <QN value="0.998"/>
        <selfTreatment value="0.63"/>
      </initialACR>
      <compliance>
        <ACT value="0.9"/>
        <selfTreatment value="0.85"/>
      </compliance>
      <nonCompliersEffective>
        <ACT value="0.2"/>
        <selfTreatment value="0"/>
      </nonCompliersEffective>
      <pSeekOfficialCareUncomplicated1 value="0.0"/>
      <pSelfTreatUncomplicated value="0.0"/>
      <pSeekOfficialCareUncomplicated2 value="0.0"/>
      <pSeekOfficialCareSevere value="0.0"/>
    </ImmediateOutcomes>
    <CFR>
      <group lowerbound="0" value="0.09189"/>
      <group lowerbound="0.25" value="0.0810811"/>
      <group lowerbound="0.75" value="0.0648649"/>
      <group lowerbound="1.5" value="0.0689189"/>
      <group lowerbound="2.5" value="0.0675676"/>
      <group lowerbound="3.5" value="0.0297297"/>
      <group lowerbound="4.5" value="0.0459459"/>
      <group lowerbound="7.5" value="0.0945946"/>
      <group lowerbound="12.5" value="0.1243243"/>
      <group lowerbound="15" value="0.1378378"/>
    </CFR>
    <pSequelaeInpatient interpolation="none">
      <group lowerbound="0.0" value="0.0132"/>
      <group lowerbound="5.0" value="0.005"/>
    </pSequelaeInpatient>
  </healthSystem>
  <entoData mode="4" name="Namawala" annualEIR="2">
    <vector>
      <!-- Total annual EIR: 2 -->
      <anopheles mosquito="gambiae_ss" propInfected="0.078" propInfectious="0.021">
        <eir EIRRotateAngle="0.636619772368" a0="-10.9254235626588" a1="0.8968" a2="-0.4551" b1="2.678" b2="2.599"/>
        <mosq extrinsicIncubationPeriod="11" minInfectedThreshold="0" mosqHumanBloodIndex="0.939" mosqLaidEggsSameDayProportion="0.313" mosqProbBiting="0.95" mosqProbFindRestSite="0.95" mosqProbOvipositing="0.88" mosqProbResting="0.99" mosqRestDuration="3" mosqSeekingDuration="0.33" mosqSurvivalFeedingCycleProbability="0.623"/>
        <nonHumanHosts mosqProbBiting="0.95" mosqProbFindRestSite="0.95" mosqProbResting="0.99" mosqRelativeEntoAvailability="1" name="unprotectedAnimals"/>
      </anopheles>
      <anopheles mosquito="funestus" propInfected="0.078" propInfectious="0.021">
        <eir EIRRotateAngle="0.636619772368" a0="-9.94342356465883" a1="-4.546" a2="-0.2198" b1="2.252" b2="-0.00743"/>
        <mosq extrinsicIncubationPeriod="11" minInfectedThreshold="0" mosqHumanBloodIndex="0.98" mosqLaidEggsSameDayProportion="0.616" mosqProbBiting="0.95" mosqProbFindRestSite="0.95" mosqProbOvipositing="0.88" mosqProbResting="0.99" mosqRestDuration="3" mosqSeekingDuration="0.33" mosqSurvivalFeedingCycleProbability="0.611"/>
        <nonHumanHosts mosqProbBiting="0.95" mosqProbFindRestSite="0.95" mosqProbResting="0.99" mosqRelativeEntoAvailability="1" name="unprotectedAnimals"/>
      </anopheles>
      <anopheles mosquito="arabiensis" propInfected="0.078" propInfectious="0.021">
        <eir EIRRotateAngle="0.636619772368" a0="-8.72942356465884" a1="0.8968" a2="-0.4551" b1="2.678" b2="2.599"/>
        <mosq extrinsicIncubationPeriod="11" minInfectedThreshold="0" mosqHumanBloodIndex="0.871" mosqLaidEggsSameDayProportion="0.313" mosqProbBiting="0.95" mosqProbFindRestSite="0.95" mosqProbOvipositing="0.88" mosqProbResting="0.99" mosqRestDuration="3" mosqSeekingDuration="0.33" mosqSurvivalFeedingCycleProbability="0.623"/>
        <nonHumanHosts mosqProbBiting="0.95" mosqProbFindRestSite="0.95" mosqProbResting="0.99" mosqRelativeEntoAvailability="1" name="unprotectedAnimals"/>
      </anopheles>
      <nonHumanHosts name="unprotectedAnimals" number="1.0"/>
    </vector>
  </entoData>
  <model>
    <ModelOptions>
      <option name="MAX_DENS_CORRECTION" value="true"/>
    </ModelOptions>
    <clinical healthSystemMemory="6"/>
    <human>
      <availabilityToMosquitoes>
        <group lowerbound="0.0" value="0.225940909648"/>
        <group lowerbound="1.0" value="0.286173633441"/>
        <group lowerbound="2.0" value="0.336898395722"/>
        <group lowerbound="3.0" value="0.370989854675"/>
        <group lowerbound="4.0" value="0.403114915112"/>
        <group lowerbound="5.0" value="0.442585112522"/>
        <group lowerbound="6.0" value="0.473839351511"/>
        <group lowerbound="7.0" value="0.512630464378"/>
        <group lowerbound="8.0" value="0.54487872702"/>
        <group lowerbound="9.0" value="0.581527755812"/>
        <group lowerbound="10.0" value="0.630257580698"/>
        <group lowerbound="11.0" value="0.663063362714"/>
        <group lowerbound="12.0" value="0.702417432755"/>
        <group lowerbound="13.0" value="0.734605377277"/>
        <group lowerbound="14.0" value="0.788908765653"/>
        <group lowerbound="15.0" value="0.839587932303"/>
        <group lowerbound="20.0" value="1.0"/>
        <group lowerbound="20.0" value="1.0"/>
      </availabilityToMosquitoes>
    </human>
    <parameters interval="5" iseed="0" latentp="3">
      <!-- run id=121 modelVers=64 parameterization id=253695 sampling date=2009-12-01 01:58:05 lossfunction=49.46573 -->
      <parameter include="0" name="'-ln(1-Sinf)'" number="1" value="0.050736"/>
      <parameter include="0" name="Estar" number="2" value="0.03247"/>
      <parameter include="1" name="Simm" number="3" value="0.148481"/>
      <parameter include="1" name="Xstar_p" number="4" value="2920.741499"/>
      <parameter include="1" name="gamma_p" number="5" value="2.105994"/>
      <parameter include="1" name="sigma2i" number="6" value="10.26069"/>
      <parameter include="1" name="CumulativeYstar" number="7" value="68564384.7102"/>
      <parameter include="1" name="CumulativeHstar" number="8" value="71.676733"/>
      <parameter include="1" name="'-ln(1-alpha_m)'" number="9" value="2.411434"/>
      <parameter include="1" name="decay_m" number="10" value="2.717773"/>
      <parameter include="1" name="sigma2_0" number="11" value="0.675205"/>
      <parameter include="1" name="Xstar_v" number="12" value="0.918329"/>
      <parameter include="1" name="Ystar2" number="13" value="10239.500357"/>
      <parameter include="1" name="alpha" number="14" value="138185.950622"/>
      <parameter include="1" name="Density bias (non Garki)" number="15" value="0.150426"/>
      <parameter include="0" name="No Use 1" number="16" value="1.0"/>
      <parameter include="1" name="log oddsr CF community" number="17" value="0.739609"/>
      <parameter include="1" name="Indirect risk cofactor" number="18" value="0.020977"/>
      <parameter include="1" name="Non-malaria infant mortality" number="19" value="45.100508"/>
      <parameter include="1" name="Density bias (Garki)" number="20" value="4.962416"/>
      <parameter include="1" name="Severe Malaria Threshhold" number="21" value="329389.646588"/>
      <parameter include="0" name="Immunity Penalty" number="22" value="1.0"/>
      <parameter include="0" name="Immune effector decay" number="23" value="9e-06"/>
      <parameter include="1" name="comorbidity intercept" number="24" value="0.076526"/>
      <parameter include="1" name="Ystar half life" number="25" value="0.265169"/>
      <parameter include="1" name="Ystar1" number="26" value="0.618741"/>
      <parameter include="0" name="Asex immune decay" number="27" value="0.0"/>
      <parameter include="1" name="Ystar0" number="28" value="576.377794"/>
      <parameter include="1" name="Idete multiplier" number="29" value="2.697203"/>
      <parameter include="1" name="critical age for comorbidity" number="30" value="0.124479"/>
    </parameters>
  </model>
</scenario>
