diff --git a/pk_optimizer/Comp1Flow.proj b/pk_optimizer/Comp1Flow.proj deleted file mode 100644 index 0ba7ecac424b16c713003333885aceaf2cdd56e8..0000000000000000000000000000000000000000 --- a/pk_optimizer/Comp1Flow.proj +++ /dev/null @@ -1,2641 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<JSim version="2.11"> - <project name="proj1"> - <plotpage name="Conc"> - <control name="desc" value=""/> - <control name="confPlot" value="0"/> - <control name="nRow" value="2"/> - <control name="nCol" value="1"/> - <control name="liveUpdate" value="false"/> - <control name="showConf" value="true"/> - <control name="showXRule" value="false"/> - <control name="xRule" value=".5"/> - <control name="showYRule" value="false"/> - <control name="yRule" value=".5"/> - <control name="showMinMaxSliders" value="false"/> - <control name="animeDuration" value="10"/> - <control name="animeRate" value="10"/> - <control name="animeLoop" value="false"/> - <control name="animeDir" value="true"/> - <plot name="plot0"> - <control name="nItems" value="2"/> - <control name="title" value="Figure 1a: Concentration: Default & ExternCin"/> - <control name="titleX" value=".5"/> - <control name="titleY" value="1"/> - <control name="footer" value="%TIME"/> - <control name="footerX" value="0"/> - <control name="footerY" value="0"/> - <control name="showLegend" value="true"/> - <control name="showTitle" value="true"/> - <control name="showFooter" value="false"/> - <control name="legendX" value=".77348066"/> - <control name="legendY" value=".68395062"/> - <control name="style" value="XY plot"/> - <control name="confItem" value="1"/> - <control name="confAxis" value="Y"/> - <plotaxis name="xaxis"> - <control name="log" value="linear"/> - <control name="autoscale" value="true"/> - <control name="label" value="Time, sec"/> - <control name="showLabel" value="false"/> - <control name="min" value="0"/> - <control name="max" value="40"/> - </plotaxis> - <plotaxis name="yaxis"> - <control name="log" value="linear"/> - <control name="autoscale" value="true"/> - <control name="label" value="Cin and Cout, mM"/> - <control name="showLabel" value="true"/> - <control name="min" value="0"/> - <control name="max" value="1"/> - </plotaxis> - <plotaxis name="zaxis"> - <control name="log" value="linear"/> - <control name="autoscale" value="true"/> - <control name="label" value="axis label"/> - <control name="showLabel" value="true"/> - <control name="min" value="0"/> - <control name="max" value="1"/> - </plotaxis> - <plotitem name="item0"> - <control name="src" value="Comp1Flow"/> - <control name="expr" value="C"/> - <control name="color" value="black"/> - <control name="size" value="small"/> - <control name="shape" value="none"/> - <control name="line" value="solid"/> - <control name="thickness" value="thick"/> - <control name="colorMap" value="none"/> - <control name="palette" value="heat"/> - <control name="show" value="true"/> - <control name="xExpr" value=""/> - <control name="yExpr" value=""/> - </plotitem> - <plotitem name="item1"> - <control name="src" value="Comp1Flow"/> - <control name="expr" value="Cin"/> - <control name="color" value="red"/> - <control name="size" value="small"/> - <control name="shape" value="none"/> - <control name="line" value="solid"/> - <control name="thickness" value="thick"/> - <control name="colorMap" value="none"/> - <control name="palette" value="heat"/> - <control name="show" value="true"/> - <control name="xExpr" value=""/> - <control name="yExpr" value=""/> - </plotitem> - </plot> - <plot name="plot1"> - <control name="nItems" value="2"/> - <control name="title" value="Figure 1b: Residual Quantity: Default & ExternCin"/> - <control name="titleX" value=".5"/> - <control name="titleY" value="1"/> - <control name="footer" value="%TIME"/> - <control name="footerX" value="0"/> - <control name="footerY" value="0"/> - <control name="showLegend" value="true"/> - <control name="showTitle" value="true"/> - <control name="showFooter" value="false"/> - <control name="legendX" value=".67915691"/> - <control name="legendY" value=".68811881"/> - <control name="style" value="XY plot"/> - <control name="confItem" value="0"/> - <control name="confAxis" value="Y"/> - <plotaxis name="xaxis"> - <control name="log" value="linear"/> - <control name="autoscale" value="true"/> - <control name="label" value="Time, seconds"/> - <control name="showLabel" value="true"/> - <control name="min" value="0"/> - <control name="max" value="40"/> - </plotaxis> - <plotaxis name="yaxis"> - <control name="log" value="linear"/> - <control name="autoscale" value="true"/> - <control name="label" value="Quantity, nanomoles"/> - <control name="showLabel" value="true"/> - <control name="min" value="0"/> - <control name="max" value="50"/> - </plotaxis> - <plotaxis name="zaxis"> - <control name="log" value="linear"/> - <control name="autoscale" value="true"/> - <control name="label" value="axis label"/> - <control name="showLabel" value="true"/> - <control name="min" value="0"/> - <control name="max" value="1"/> - </plotaxis> - <plotitem name="item0"> - <control name="src" value="Comp1Flow"/> - <control name="expr" value="Q"/> - <control name="color" value="black"/> - <control name="size" value="small"/> - <control name="shape" value="none"/> - <control name="line" value="solid"/> - <control name="thickness" value="thick"/> - <control name="colorMap" value="none"/> - <control name="palette" value="heat"/> - <control name="show" value="true"/> - <control name="xExpr" value=""/> - <control name="yExpr" value=""/> - </plotitem> - <plotitem name="item1"> - <control name="src" value="Comp1Flow"/> - <control name="expr" value="Qint"/> - <control name="color" value="red"/> - <control name="size" value="small"/> - <control name="shape" value="none"/> - <control name="line" value="solid"/> - <control name="thickness" value="medium"/> - <control name="colorMap" value="none"/> - <control name="palette" value="heat"/> - <control name="show" value="true"/> - <control name="xExpr" value=""/> - <control name="yExpr" value=""/> - </plotitem> - </plot> - </plotpage> - <model name="Comp1Flow"> - <control name="parSetModified" value="false"/> - <control name="desc" value=""/> - <control name="easelVariant" value=""/> - <control name="notes">Figure 1a: Concentration: Default parameter set - -A washout curve is plotted for the case when Cin, the -inflowing concentration is always zero. C, the -concentration in the compartment has the same shape -as the first order decay process. - -Figure 1b: Residual Quantity: Default parameter set - -The residual quantities, Q and Qint are calculated by -two different methods and give the same result: - - Q(t) = Volume*C(t) - - / t - Qint(t) = | Flow*(Cin(t')-C(t'))dt' - / t.min - -CHANGE TO PARSET ExternCin -Figure 1a: Concentration: ExternCin parameter set - -The input concentration, Cin, is given by a Lagged -Normal function from the function generator, fgen_1. -Cout, the outflow, equals C, the concentration in -the compartment, because the compartment is -instantaneously well-mixed. The outflow has a lower -peak and a broader distribution caused by the -instantaneous mixing. - -Figure 1b: Residual Quantity: ExternCin parameter set -See above discussion for Figure 1b using default parameter -set. - - -Figure 2A: Area of Cin and Cout: Default Parameter set - -The running integral of Cin and Cout with respect to time is -plotted. Eventually the areas are equal after a "long" time, -in this case 40 seconds. - -Figure 2B: Transit Time: Default parameter set - -The running calculation of Tbar_in, Tbar_out, and Tbar_sys -is plotted along with the calculation of Tbar_sys equal to -Volume/Flow (green dashed line). It is seen that after 40 -seconds when the area of the output concentration curve -matches the area of the input concentration curve, Tbar_sys -(orange line) approaches the value given by the system -transit time (green dashed line). -</control> - <control name="modelSource">// MODEL NUMBER: 0241 - // MODEL NAME: Comp1Flow - // SHORT DESCRIPTION: Models single compartment with inflowing and outflowing - // concentration of a single substance. - - import nsrunit; unit conversion on; - - math Comp1Flow { - // INDEPENDENT VARIABLE - realDomain t sec; t.min=0; t.max=40; t.delta=0.1; - - // PARAMETERS - real C0 = 0 mM, // Initial Concentration - Volume = 0.06 ml, // Volume of compartment - Flow = 0.01 ml/sec; // Flow rate (volume per second) - extern real Cin(t) mM; // Inflowing concentration (defined with - // function generator) - // VARIABLES - real C(t) mM, // Concentration in compartment - Cout(t) mM; // Outflowing concentration NOTE that Cout=C because - // the compartment is instantaneously well mixed. - // INITIAL CONDITION - when(t = t.min) C=C0; - - // ORDINARY DIFFERENTIAL EQUATION - C:t = (Flow/Volume)*(Cin-Cout); - Cout = C; - - //ADDITIONAL CALCULATIONS -real Canalytic(t) mM; -Canalytic= Cin+(C0-Cin)*exp(-Flow*t/Volume); - - // QUANTITY OF SUBSTANCE FROM TWO DIFFERENT CALCULATIONS - real Q(t) nmol, // Quantity = Volume* Concentration - Qint(t) nmol; // Quantity = integral of Flow multiplying inflow - // concentration minus outflow concentration - Q = Volume*C;when (t=t.min) Qint=Volume*C0; - Qint:t = Flow*(Cin-Cout); - - // AREA AND TRANSIT TIME OF INFLOW AND OUTFLOW CONCENTRATIONS - private real S2_in(t) mM*sec^2, S2_out(t) mM*sec^2; // First moments - real Area_in(t) mM*sec, Area_out(t) mM*sec, // Areas - Tbar_in(t) sec, Tbar_out(t) sec, Tbar_sys(t) sec; // Transit times - when(t=t.min) {Area_in = 0; S2_in = 0; - Area_out = 0; S2_out = 0; } - Area_in:t = Cin; - Area_out:t = Cout; - S2_in:t = Cin*t; - S2_out:t = Cout*t; - Tbar_in = if(Area_in>0) S2_in /Area_in else 0; - Tbar_out = if(Area_out>0) S2_out/Area_out else 0; - Tbar_sys = Tbar_out-Tbar_in; - } -/* DIAGRAM - - +-----------------------------+ - Flow*Cin ---> C ---> Flow*Cout - | Volume | Cout = C - | instantaneously well mixed | - +-----------------------------+ - -DETAILED DESCRIPTION: - - In a single compartment with flow, there is a source - term, (Flow/Volume)*Cin, which adds material to the - compartment, and a sink term, -(Flow/Volume)*C, the washout - term, which removes material from the compartment. These - two terms are usually combined as a single term in the - mass balance ordinary differential equation after dividing - left and right hand sides by the volume: - dC/dt = (Flow/Volume)*(Cin-C). - The compartment is instantaneously well mixed. - - Various methods for checking the - calculations in a model are illustrated: (1) two methods of - calculating the amount of material in a compartment with - flow, (2) comparison of the running integrals of inflow and - outflow concentrations, and (3) calculation of the system - transit time of a compartment model with flow by - two different methods. - - SHORTCOMINGS/GENERAL COMMENTS: - - None. - - KEY WORDS: - compartment, compartmental, flow, first order process, Tutorial - - REFERENCES: None. - - REVISION HISTORY: - - JSim SOFTWARE COPYRIGHT AND REQUEST FOR ACKNOWLEDGMENT OF USE: - - JSim software was developed with support from NIH grants HL088516, - and HL073598. Please cite these grants in any publication for which - this software is used and send one reprint of published abstracts or - articles to the address given below. Academic use is unrestricted. - Software may be copied so long as this copyright notice is included. - - Copyright (C) 1999-2009 University of Washington. - - Contact Information: - - The National Simulation Resource, - Director J. B. Bassingthwaighte, - Department of Bioengineering, - University of Washington, Seattle, WA - 98195-5061 - -*/</control> - <control name="sourceType" value="mml"/> - <control name="parSetName" value="Default"/> - <control name="built" value="true"/> - <control name="customRTML"></control> - <control name="customBuilt" value="false"/> - <options name="buildOptions"> - <control name="maxBuildTime" value="120"/> - <control name="maxImplicitBlock" value="3"/> - <control name="initNaN" value="false"/> - <control name="abortNaN" value="false"/> - <control name="traceNaN" value="false"/> - <control name="traceVars" value=""/> - <control name="ignoreAllOverspec" value="false"/> - <control name="ignoreAllUnderspec" value="false"/> - </options> - <vars name="vars"> - <function name="fgen_1"/> - </vars> - <parset name="last"> - <pargroups> - <pargroup name="inputs"> - <control name="t.min" value="0"/> - <control name="t.max" value="40"/> - <control name="t.delta" value=".1"/> - <control name="C0" value="1"/> - <control name="Volume" value=".05"/> - <control name="Flow" value=".01"/> - <control name="Area_in__init" value="0"/> - <control name="Area_out__init" value="0"/> - <control name="Cin" value="0"/> - </pargroup> - <pargroup name="solver"> - <control name="ode_which" value="Auto"/> - <control name="ode_Dopri5_reltol" value="1E-7"/> - <control name="ode_Dopri5_abstol" value="1E-7"/> - <control name="ode_Dopri5_nstep" value="100000"/> - <control name="ode_Dopri5_stiff" value="1000"/> - <control name="ode_Dopri5_round" value="2.3E-16"/> - <control name="ode_Dopri5_safety" value=".9"/> - <control name="ode_Dopri5_loselect" value=".2"/> - <control name="ode_Dopri5_hiselect" value="10"/> - <control name="ode_Dopri5_beta" value=".04"/> - <control name="ode_Euler_nstep" value="2"/> - <control name="ode_RK2_nstep" value="2"/> - <control name="ode_Fehlberg_minstep" value="1E-4"/> - <control name="ode_Fehlberg_maxstep" value=".1"/> - <control name="ode_Fehlberg_tol" value="1E-6"/> - <control name="ode_KM_minstep" value="1E-4"/> - 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<control name="Longtail.beta3" value="1"/> - <control name="Longtail.beta4" value=".5"/> - <control name="Longtail.timeToRepeat" value="0"/> - <control name="GammaVar.area" value="1"/> - <control name="GammaVar.tMean" value="5"/> - <control name="GammaVar.RD" value=".3"/> - <control name="GammaVar.skewn" value="1.3"/> - <control name="GammaVar.frPeak" value="1E-6"/> - <control name="GammaVar.timeToRepeat" value="0"/> - <control name="Poisson.area" value="1"/> - <control name="Poisson.tMean" value="5"/> - <control name="Poisson.RD" value=".3"/> - <control name="Poisson.frPeak" value="1E-6"/> - <control name="Poisson.timeToRepeat" value="0"/> - <control name="RandomWalk.area" value="1"/> - <control name="RandomWalk.tMean" value="5"/> - <control name="RandomWalk.RD" value=".3"/> - <control name="RandomWalk.skewn" value="1"/> - <control name="RandomWalk.frPeak" value="1E-6"/> - <control name="RandomWalk.timeToRepeat" value="0"/> - <control name="DataCurve.ndim" value="1"/> - <control name="DataCurve.dataSet" value=""/> - 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<control name="Pulse2.p2Start" value="1"/> - <control name="Pulse2.p2Duration" value="2"/> - <control name="Pulse2.p2Amplitude" value="2"/> - <control name="Pulse2.p2TimeToRepeat" value="0"/> - <control name="Pulse3.p1Start" value="0"/> - <control name="Pulse3.p1Duration" value="1"/> - <control name="Pulse3.p1Amplitude" value="1"/> - <control name="Pulse3.offset" value="0"/> - <control name="Pulse3.p1TimeToRepeat" value="10"/> - <control name="Pulse3.p2Start" value="1"/> - <control name="Pulse3.p2Duration" value="2"/> - <control name="Pulse3.p2Amplitude" value="2"/> - <control name="Pulse3.p2TimeToRepeat" value="0"/> - <control name="Pulse3.p3Start" value="3"/> - <control name="Pulse3.p3Duration" value="3"/> - <control name="Pulse3.p3Amplitude" value="3"/> - <control name="Pulse3.p3TimeToRepeat" value="0"/> - <control name="ExtendedPulse3.offset" value="0"/> - <control name="ExtendedPulse3.timeToRepeat" value="3"/> - <control name="ExtendedPulse3.p1Start" value="0"/> - <control name="ExtendedPulse3.p1Duration" value=".5"/> - <control name="ExtendedPulse3.p1Amplitude" value="1"/> - <control name="ExtendedPulse3.p1LoopCnt" value="1"/> - <control name="ExtendedPulse3.p1AmpIncr" value="0"/> - <control name="ExtendedPulse3.p2Start" value="1"/> - <control name="ExtendedPulse3.p2Duration" value=".5"/> - <control name="ExtendedPulse3.p2Amplitude" value="2"/> - <control name="ExtendedPulse3.p2LoopCnt" value="3"/> - <control name="ExtendedPulse3.p2AmpIncr" value=".5"/> - <control name="ExtendedPulse3.p3Start" value="2"/> - <control name="ExtendedPulse3.p3Duration" value=".5"/> - <control name="ExtendedPulse3.p3Amplitude" value="3"/> - <control name="ExtendedPulse3.p3LoopCnt" value="0"/> - <control name="ExtendedPulse3.p3AmpIncr" value="0"/> - <control name="Ramp.startTime" value="1"/> - <control name="Ramp.duration" value="5"/> - <control name="Ramp.amplitude" value="-1"/> - <control name="Ramp.offset" value="1"/> - <control name="Ramp.exponent" value="3"/> - <control name="Ramp.timeToRepeat" value="10"/> - <control name="SquareWaveTrain.startTime" value="0"/> - <control name="SquareWaveTrain.duration" value="10"/> - <control name="SquareWaveTrain.amplitude" value="1"/> - <control name="SquareWaveTrain.offset" value="0"/> - <control name="SquareWaveTrain.shapeFactor" value=".5"/> - <control name="SquareWaveTrain.phase" value="0"/> - <control name="SquareWaveTrain.period" value="5"/> - <control name="SquareWaveTrain.timeToRepeat" value="0"/> - <control name="SawtoothTrain.startTime" value="0"/> - <control name="SawtoothTrain.duration" value="10"/> - <control name="SawtoothTrain.amplitude" value="1"/> - <control name="SawtoothTrain.offset" value="0"/> - <control name="SawtoothTrain.shapeFactor" value=".5"/> - <control name="SawtoothTrain.phase" value="0"/> - <control name="SawtoothTrain.period" value="5"/> - <control name="SawtoothTrain.timeToRepeat" value="0"/> - <control name="SineTrain.startTime" value="0"/> - <control name="SineTrain.duration" value="5"/> - <control name="SineTrain.amplitude" value="1"/> - <control name="SineTrain.offset" value="0"/> - <control name="SineTrain.phase" value="0"/> - <control name="SineTrain.period" value="5"/> - <control name="SineTrain.timeToRepeat" value="10"/> - <control name="Exponential.area" value="1"/> - <control name="Exponential.tMean" value="5"/> - <control name="Exponential.RD" value=".3"/> - <control name="Exponential.frPeak" value="1E-6"/> - <control name="Exponential.timeToRepeat" value="0"/> - <control name="Gaussian.area" value="1"/> - <control name="Gaussian.tMean" value="5"/> - <control name="Gaussian.RD" value=".3"/> - <control name="Gaussian.frPeak" value="1E-6"/> - <control name="Gaussian.timeToRepeat" value="0"/> - <control name="LagNormal.area" value="1"/> - <control name="LagNormal.tMean" value="5"/> - <control name="LagNormal.RD" value=".3"/> - <control name="LagNormal.skewn" value="1.3"/> - <control name="LagNormal.frPeak" value="1E-6"/> - <control name="LagNormal.upslope" value="Regular"/> - <control name="LagNormal.timeToRepeat" value="0"/> - <control name="Longtail.area" value="1"/> - <control name="Longtail.frArea" value=".3"/> - <control name="Longtail.tMean" value="5"/> - <control name="Longtail.RD" value=".3"/> - <control name="Longtail.skewn" value="1.3"/> - <control name="Longtail.frPeak" value=".1"/> - <control name="Longtail.upslope" value="Regular"/> - <control name="Longtail.nexp" value="3"/> - <control name="Longtail.rk1" value="1"/> - <control name="Longtail.rk2" value=".2"/> - <control name="Longtail.rk3" value=".04"/> - <control name="Longtail.rk4" value=".008"/> - <control name="Longtail.scaleta" value="1"/> - <control name="Longtail.timeToRepeat" value="0"/> - <control name="GammaVar.area" value="1"/> - <control name="GammaVar.tMean" value="5"/> - <control name="GammaVar.RD" value=".3"/> - <control name="GammaVar.skewn" value="1.3"/> - <control name="GammaVar.frPeak" value="1E-6"/> - <control name="GammaVar.timeToRepeat" value="0"/> - <control name="Poisson.area" value="1"/> - <control name="Poisson.tMean" value="5"/> - <control name="Poisson.RD" value=".3"/> - <control name="Poisson.frPeak" value="1E-6"/> - <control name="Poisson.timeToRepeat" value="0"/> - <control name="RandomWalk.area" value="1"/> - <control name="RandomWalk.tMean" value="5"/> - <control name="RandomWalk.RD" value=".3"/> - <control name="RandomWalk.skewn" value="1"/> - <control name="RandomWalk.frPeak" value="1E-6"/> - <control name="RandomWalk.timeToRepeat" value="0"/> - <control name="DataCurve.ndim" value="1"/> - <control name="DataCurve.dataSet" value=""/> - <control name="DataCurve.name" value=""/> - <control name="domain0" value="t"/> - <control name="domain1" value=""/> - <control name="domain2" value=""/> - </pargroup> - <pargroup name="inputs"> - <control name="t.min" value="0"/> - <control name="t.max" value="40"/> - <control name="t.delta" value=".1"/> - <control name="C0" value="1"/> - <control name="Volume" value=".05"/> - <control name="Flow" value=".01"/> - <control name="Area_in__init" value="0"/> - <control name="Area_out__init" value="0"/> - <control name="Cin" value="0"/> - </pargroup> - </pargroups> - <vars name="vars"> - <solver name="solver"> - <control name="ode_which" value="Auto"/> - <control name="ode_Dopri5_reltol" value="1E-7"/> - <control name="ode_Dopri5_abstol" value="1E-7"/> - <control name="ode_Dopri5_nstep" value="100000"/> - <control name="ode_Dopri5_stiff" value="1000"/> - <control name="ode_Dopri5_round" value="2.3E-16"/> - <control name="ode_Dopri5_safety" value=".9"/> - <control name="ode_Dopri5_loselect" value=".2"/> - <control name="ode_Dopri5_hiselect" value="10"/> - <control name="ode_Dopri5_beta" value=".04"/> - <control name="ode_Euler_nstep" value="2"/> - <control name="ode_RK2_nstep" value="2"/> - <control name="ode_Fehlberg_minstep" value="1E-4"/> - <control name="ode_Fehlberg_maxstep" value=".1"/> - <control name="ode_Fehlberg_tol" value="1E-6"/> - <control name="ode_KM_minstep" value="1E-4"/> - <control name="ode_KM_maxstep" value=".1"/> - <control name="ode_KM_tol" value="1E-6"/> - <control name="ode_Radau_reltol" value="1E-4"/> - <control name="ode_Radau_abstol" value="1E-7"/> - <control name="ode_Radau_nstep" value="100000"/> - <control name="ode_Radau_round" value="1E-16"/> - <control name="ode_Radau_safety" value=".9"/> - <control name="ode_Radau_minord" value="3"/> - <control name="ode_Radau_maxord" value="7"/> - <control name="ode_Radau_initord" value="3"/> - <control name="ode_Radau_newton" value="7"/> - <control name="ode_Radau_jacob" value=".001"/> - <control name="ode_Radau_losize" value="1"/> - <control name="ode_Radau_hisize" value="1.2"/> - <control name="ode_Radau_loselect" value=".2"/> - <control name="ode_Radau_hiselect" value="8"/> - <control name="ode_Radau_locontract" value=".002"/> - <control name="ode_Radau_hicontract" value=".8"/> - <control name="ode_Radau_hiorder" value="1.2"/> - <control name="ode_Radau_loorder" value=".8"/> - <control name="ode_RK4_nstep" value="2"/> - <control name="ode_CVode_reltol" value="1E-7"/> - <control name="ode_CVode_abstol" value="1E-8"/> - <control name="ode_CVode_maxsteps" value="100000"/> - <control name="ode_CVode_stiff" value="false"/> - <control name="pde_which" value="MacCormack"/> - <control name="pde_MacCormack_FCT" value="false"/> - <control name="fzero_unbound" value=""/> - <control name="fzero_bound" value=""/> - <control name="fzero_errtol" value="1E-6"/> - <control name="fzero_maxcalls" value="500"/> - <control name="fzero_maxiters" value="100"/> - <control name="fzero_eps" value="1E-6"/> - <control name="fzero_istep" value=".01"/> - <control name="fzero_npoints" value="5"/> - <control name="fzero_randseed" value="0"/> - <control name="fzero_inittemp" value="100"/> - <control name="random_seed" value="0"/> - </solver> - <function name="fgen_1"> - <control name="desc" value=""/> - <control name="which" value="LagNormal"/> - <function name="Pulse1"> - <control name="startTime" value="0"/> - <control name="duration" value="1"/> - <control name="amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="timeToRepeat" value="10"/> - </function> - <function name="Pulse2"> - <control name="p1Start" value="0"/> - <control name="p1Duration" value="1"/> - <control name="p1Amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="p1TimeToRepeat" value="10"/> - <control name="p2Start" value="1"/> - <control name="p2Duration" value="2"/> - <control name="p2Amplitude" value="2"/> - <control name="p2TimeToRepeat" value="0"/> - </function> - <function name="Pulse3"> - <control name="p1Start" value="0"/> - <control name="p1Duration" value="1"/> - <control name="p1Amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="p1TimeToRepeat" value="10"/> - <control name="p2Start" value="1"/> - <control name="p2Duration" value="2"/> - <control name="p2Amplitude" value="2"/> - <control name="p2TimeToRepeat" value="0"/> - <control name="p3Start" value="3"/> - <control name="p3Duration" value="3"/> - <control name="p3Amplitude" value="3"/> - <control name="p3TimeToRepeat" value="0"/> - </function> - <function name="ExtendedPulse3"> - <control name="offset" value="0"/> - <control name="timeToRepeat" value="3"/> - <control name="p1Start" value="0"/> - <control name="p1Duration" value=".5"/> - <control name="p1Amplitude" value="1"/> - <control name="p1LoopCnt" value="1"/> - <control name="p1AmpIncr" value="0"/> - <control name="p2Start" value="1"/> - <control name="p2Duration" value=".5"/> - <control name="p2Amplitude" value="2"/> - <control name="p2LoopCnt" value="3"/> - <control name="p2AmpIncr" value=".5"/> - <control name="p3Start" value="2"/> - <control name="p3Duration" value=".5"/> - <control name="p3Amplitude" value="3"/> - <control name="p3LoopCnt" value="0"/> - <control name="p3AmpIncr" value="0"/> - </function> - <function name="Ramp"> - <control name="startTime" value="1"/> - <control name="duration" value="5"/> - <control name="amplitude" value="-1"/> - <control name="offset" value="1"/> - <control name="exponent" value="3"/> - <control name="timeToRepeat" value="10"/> - </function> - <function name="SquareWaveTrain"> - <control name="startTime" value="0"/> - <control name="duration" value="10"/> - <control name="amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="shapeFactor" value=".5"/> - <control name="phase" value="0"/> - <control name="period" value="5"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="SawtoothTrain"> - <control name="startTime" value="0"/> - <control name="duration" value="10"/> - <control name="amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="shapeFactor" value=".5"/> - <control name="phase" value="0"/> - <control name="period" value="5"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="SineTrain"> - <control name="startTime" value="0"/> - <control name="duration" value="5"/> - <control name="amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="phase" value="0"/> - <control name="period" value="5"/> - <control name="timeToRepeat" value="10"/> - </function> - <function name="Exponential"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="Gaussian"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="LagNormal"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1.3"/> - <control name="frPeak" value="1E-6"/> - <control name="upslope" value="Regular"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="Longtail"> - <control name="area" value="1"/> - <control name="frArea" value=".3"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1.3"/> - <control name="frPeak" value=".1"/> - <control name="upslope" value="Regular"/> - <control name="nexp" value="3"/> - <control name="rk1" value="1"/> - <control name="rk2" value=".2"/> - <control name="rk3" value=".04"/> - <control name="rk4" value=".008"/> - <control name="scaleta" value="1"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="GammaVar"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1.3"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="Poisson"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="RandomWalk"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="DataCurve"> - <control name="ndim" value="1"/> - <control name="dataSet" value=""/> - <control name="name" value=""/> - </function> - <control name="domain0" value="t"/> - <control name="domain1" value=""/> - <control name="domain2" value=""/> - </function> - <assign name="vars"> - <control name="t.min" value="0"/> - <control name="t.max" value="40"/> - <control name="t.delta" value=".1"/> - <control name="C0" value="1"/> - <control name="Volume" value=".05"/> - <control name="Flow" value=".01"/> - <control name="Area_in__init" value="0"/> - <control name="Area_out__init" value="0"/> - <control name="Cin" value="0"/> - </assign> - </vars> - <control name="desc" value=""/> - <control name="locked" value="false"/> - <control name="notes"></control> - </parset> - <parset name="ExternCin"> - <pargroups> - <pargroup name="solver"> - <control name="ode_which" value="Auto"/> - <control name="ode_Dopri5_reltol" value="1E-7"/> - <control name="ode_Dopri5_abstol" value="1E-7"/> - <control name="ode_Dopri5_nstep" value="100000"/> - <control name="ode_Dopri5_stiff" value="1000"/> - <control name="ode_Dopri5_round" value="2.3E-16"/> - <control name="ode_Dopri5_safety" value=".9"/> - <control name="ode_Dopri5_loselect" value=".2"/> - <control name="ode_Dopri5_hiselect" value="10"/> - <control name="ode_Dopri5_beta" value=".04"/> - <control name="ode_Euler_nstep" value="2"/> - <control name="ode_RK2_nstep" value="2"/> - <control name="ode_Fehlberg_minstep" value="1E-4"/> - <control name="ode_Fehlberg_maxstep" value=".1"/> - <control name="ode_Fehlberg_tol" value="1E-6"/> - <control name="ode_KM_minstep" value="1E-4"/> - <control name="ode_KM_maxstep" value=".1"/> - <control name="ode_KM_tol" value="1E-6"/> - <control name="ode_Radau_reltol" value="1E-4"/> - <control name="ode_Radau_abstol" value="1E-7"/> - <control name="ode_Radau_nstep" value="100000"/> - <control name="ode_Radau_round" value="1E-16"/> - <control name="ode_Radau_safety" value=".9"/> - <control name="ode_Radau_minord" value="3"/> - <control name="ode_Radau_maxord" value="7"/> - <control name="ode_Radau_initord" value="3"/> - <control name="ode_Radau_newton" value="7"/> - <control name="ode_Radau_jacob" value=".001"/> - <control name="ode_Radau_losize" value="1"/> - <control name="ode_Radau_hisize" value="1.2"/> - <control name="ode_Radau_loselect" value=".2"/> - <control name="ode_Radau_hiselect" value="8"/> - <control name="ode_Radau_locontract" value=".002"/> - <control name="ode_Radau_hicontract" value=".8"/> - <control name="ode_Radau_hiorder" value="1.2"/> - <control name="ode_Radau_loorder" value=".8"/> - <control name="ode_RK4_nstep" value="2"/> - <control name="ode_CVode_reltol" value="1E-7"/> - <control name="ode_CVode_abstol" value="1E-8"/> - <control name="ode_CVode_maxsteps" value="100000"/> - <control name="ode_CVode_stiff" value="false"/> - <control name="pde_which" value="MacCormack"/> - <control name="pde_MacCormack_FCT" value="false"/> - <control name="fzero_unbound" value=""/> - <control name="fzero_bound" value=""/> - <control name="fzero_errtol" value="1E-6"/> - <control name="fzero_maxcalls" value="500"/> - <control name="fzero_maxiters" value="100"/> - <control name="fzero_eps" value="1E-6"/> - <control name="fzero_istep" value=".01"/> - <control name="fzero_npoints" value="5"/> - <control name="fzero_randseed" value="0"/> - <control name="fzero_inittemp" value="100"/> - <control name="random_seed" value="0"/> - </pargroup> - <pargroup name="function:fgen_1"> - <control name="desc" value=""/> - <control name="which" value="LagNormal"/> - <control name="Pulse1.startTime" value="0"/> - <control name="Pulse1.duration" value="1"/> - <control name="Pulse1.amplitude" value="1"/> - <control name="Pulse1.offset" value="0"/> - <control name="Pulse1.timeToRepeat" value="10"/> - <control name="Pulse2.p1Start" value="0"/> - <control name="Pulse2.p1Duration" value="1"/> - <control name="Pulse2.p1Amplitude" value="1"/> - <control name="Pulse2.offset" value="0"/> - <control name="Pulse2.p1TimeToRepeat" value="10"/> - <control name="Pulse2.p2Start" value="1"/> - <control name="Pulse2.p2Duration" value="2"/> - <control name="Pulse2.p2Amplitude" value="2"/> - <control name="Pulse2.p2TimeToRepeat" value="0"/> - <control name="Pulse3.p1Start" value="0"/> - <control name="Pulse3.p1Duration" value="1"/> - <control name="Pulse3.p1Amplitude" value="1"/> - <control name="Pulse3.offset" value="0"/> - <control name="Pulse3.p1TimeToRepeat" value="10"/> - <control name="Pulse3.p2Start" value="1"/> - <control name="Pulse3.p2Duration" value="2"/> - <control name="Pulse3.p2Amplitude" value="2"/> - <control name="Pulse3.p2TimeToRepeat" value="0"/> - <control name="Pulse3.p3Start" value="3"/> - <control name="Pulse3.p3Duration" value="3"/> - <control name="Pulse3.p3Amplitude" value="3"/> - <control name="Pulse3.p3TimeToRepeat" value="0"/> - <control name="ExtendedPulse3.offset" value="0"/> - <control name="ExtendedPulse3.timeToRepeat" value="3"/> - <control name="ExtendedPulse3.p1Start" value="0"/> - <control name="ExtendedPulse3.p1Duration" value=".5"/> - <control name="ExtendedPulse3.p1Amplitude" value="1"/> - <control name="ExtendedPulse3.p1LoopCnt" value="1"/> - <control name="ExtendedPulse3.p1AmpIncr" value="0"/> - <control name="ExtendedPulse3.p2Start" value="1"/> - <control name="ExtendedPulse3.p2Duration" value=".5"/> - <control name="ExtendedPulse3.p2Amplitude" value="2"/> - <control name="ExtendedPulse3.p2LoopCnt" value="3"/> - <control name="ExtendedPulse3.p2AmpIncr" value=".5"/> - <control name="ExtendedPulse3.p3Start" value="2"/> - <control name="ExtendedPulse3.p3Duration" value=".5"/> - <control name="ExtendedPulse3.p3Amplitude" value="3"/> - <control name="ExtendedPulse3.p3LoopCnt" value="0"/> - <control name="ExtendedPulse3.p3AmpIncr" value="0"/> - <control name="Ramp.startTime" value="1"/> - <control name="Ramp.duration" value="5"/> - <control name="Ramp.amplitude" value="-1"/> - <control name="Ramp.offset" value="1"/> - <control name="Ramp.exponent" value="3"/> - <control name="Ramp.timeToRepeat" value="10"/> - <control name="SquareWaveTrain.startTime" value="0"/> - <control name="SquareWaveTrain.duration" value="10"/> - <control name="SquareWaveTrain.amplitude" value="1"/> - <control name="SquareWaveTrain.offset" value="0"/> - <control name="SquareWaveTrain.shapeFactor" value=".5"/> - <control name="SquareWaveTrain.phase" value="0"/> - <control name="SquareWaveTrain.period" value="5"/> - <control name="SquareWaveTrain.timeToRepeat" value="0"/> - <control name="SawtoothTrain.startTime" value="0"/> - <control name="SawtoothTrain.duration" value="10"/> - <control name="SawtoothTrain.amplitude" value="1"/> - <control name="SawtoothTrain.offset" value="0"/> - <control name="SawtoothTrain.shapeFactor" value=".5"/> - <control name="SawtoothTrain.phase" value="0"/> - <control name="SawtoothTrain.period" value="5"/> - <control name="SawtoothTrain.timeToRepeat" value="0"/> - <control name="SineTrain.startTime" value="0"/> - <control name="SineTrain.duration" value="5"/> - <control name="SineTrain.amplitude" value="1"/> - <control name="SineTrain.offset" value="0"/> - <control name="SineTrain.phase" value="0"/> - <control name="SineTrain.period" value="5"/> - <control name="SineTrain.timeToRepeat" value="10"/> - <control name="Exponential.area" value="1"/> - <control name="Exponential.tMean" value="5"/> - <control name="Exponential.RD" value=".3"/> - <control name="Exponential.frPeak" value="1E-6"/> - <control name="Exponential.timeToRepeat" value="0"/> - <control name="Gaussian.area" value="1"/> - <control name="Gaussian.tMean" value="5"/> - <control name="Gaussian.RD" value=".3"/> - <control name="Gaussian.frPeak" value="1E-6"/> - <control name="Gaussian.timeToRepeat" value="0"/> - <control name="LagNormal.area" value="1"/> - <control name="LagNormal.tMean" value="5"/> - <control name="LagNormal.RD" value=".3"/> - <control name="LagNormal.skewn" value="1.3"/> - <control name="LagNormal.frPeak" value="1E-6"/> - <control name="LagNormal.upslope" value="Regular"/> - <control name="LagNormal.timeToRepeat" value="0"/> - <control name="Longtail.area" value="1"/> - <control name="Longtail.frArea" value=".3"/> - <control name="Longtail.tMean" value="5"/> - <control name="Longtail.RD" value=".3"/> - <control name="Longtail.skewn" value="1.3"/> - <control name="Longtail.frPeak" value=".1"/> - <control name="Longtail.upslope" value="Regular"/> - <control name="Longtail.nexp" value="3"/> - <control name="Longtail.rk1" value="1"/> - <control name="Longtail.rk2" value=".2"/> - <control name="Longtail.rk3" value=".04"/> - <control name="Longtail.rk4" value=".008"/> - <control name="Longtail.scaleta" value="1"/> - <control name="Longtail.timeToRepeat" value="0"/> - <control name="GammaVar.area" value="1"/> - <control name="GammaVar.tMean" value="5"/> - <control name="GammaVar.RD" value=".3"/> - <control name="GammaVar.skewn" value="1.3"/> - <control name="GammaVar.frPeak" value="1E-6"/> - <control name="GammaVar.timeToRepeat" value="0"/> - <control name="Poisson.area" value="1"/> - <control name="Poisson.tMean" value="5"/> - <control name="Poisson.RD" value=".3"/> - <control name="Poisson.frPeak" value="1E-6"/> - <control name="Poisson.timeToRepeat" value="0"/> - <control name="RandomWalk.area" value="1"/> - <control name="RandomWalk.tMean" value="5"/> - <control name="RandomWalk.RD" value=".3"/> - <control name="RandomWalk.skewn" value="1"/> - <control name="RandomWalk.frPeak" value="1E-6"/> - <control name="RandomWalk.timeToRepeat" value="0"/> - <control name="DataCurve.ndim" value="1"/> - <control name="DataCurve.dataSet" value=""/> - <control name="DataCurve.name" value=""/> - <control name="domain0" value="t"/> - <control name="domain1" value=""/> - <control name="domain2" value=""/> - </pargroup> - <pargroup name="inputs"> - <control name="t.min" value="0"/> - <control name="t.max" value="60"/> - <control name="t.delta" value=".1"/> - <control name="C0" value="0"/> - <control name="Volume" value=".05"/> - <control name="Flow" value=".01"/> - <control name="Area_in__init" value="0"/> - <control name="Area_out__init" value="0"/> - <control name="Cin" value="fgen_1"/> - </pargroup> - </pargroups> - <vars name="vars"> - <solver name="solver"> - <control name="ode_which" value="Auto"/> - <control name="ode_Dopri5_reltol" value="1E-7"/> - <control name="ode_Dopri5_abstol" value="1E-7"/> - <control name="ode_Dopri5_nstep" value="100000"/> - <control name="ode_Dopri5_stiff" value="1000"/> - <control name="ode_Dopri5_round" value="2.3E-16"/> - <control name="ode_Dopri5_safety" value=".9"/> - <control name="ode_Dopri5_loselect" value=".2"/> - <control name="ode_Dopri5_hiselect" value="10"/> - <control name="ode_Dopri5_beta" value=".04"/> - <control name="ode_Euler_nstep" value="2"/> - <control name="ode_RK2_nstep" value="2"/> - <control name="ode_Fehlberg_minstep" value="1E-4"/> - <control name="ode_Fehlberg_maxstep" value=".1"/> - <control name="ode_Fehlberg_tol" value="1E-6"/> - <control name="ode_KM_minstep" value="1E-4"/> - <control name="ode_KM_maxstep" value=".1"/> - <control name="ode_KM_tol" value="1E-6"/> - <control name="ode_Radau_reltol" value="1E-4"/> - <control name="ode_Radau_abstol" value="1E-7"/> - <control name="ode_Radau_nstep" value="100000"/> - <control name="ode_Radau_round" value="1E-16"/> - <control name="ode_Radau_safety" value=".9"/> - <control name="ode_Radau_minord" value="3"/> - <control name="ode_Radau_maxord" value="7"/> - <control name="ode_Radau_initord" value="3"/> - <control name="ode_Radau_newton" value="7"/> - <control name="ode_Radau_jacob" value=".001"/> - <control name="ode_Radau_losize" value="1"/> - <control name="ode_Radau_hisize" value="1.2"/> - <control name="ode_Radau_loselect" value=".2"/> - <control name="ode_Radau_hiselect" value="8"/> - <control name="ode_Radau_locontract" value=".002"/> - <control name="ode_Radau_hicontract" value=".8"/> - <control name="ode_Radau_hiorder" value="1.2"/> - <control name="ode_Radau_loorder" value=".8"/> - <control name="ode_RK4_nstep" value="2"/> - <control name="ode_CVode_reltol" value="1E-7"/> - <control name="ode_CVode_abstol" value="1E-8"/> - <control name="ode_CVode_maxsteps" value="100000"/> - <control name="ode_CVode_stiff" value="false"/> - <control name="pde_which" value="MacCormack"/> - <control name="pde_MacCormack_FCT" value="false"/> - <control name="fzero_unbound" value=""/> - <control name="fzero_bound" value=""/> - <control name="fzero_errtol" value="1E-6"/> - <control name="fzero_maxcalls" value="500"/> - <control name="fzero_maxiters" value="100"/> - <control name="fzero_eps" value="1E-6"/> - <control name="fzero_istep" value=".01"/> - <control name="fzero_npoints" value="5"/> - <control name="fzero_randseed" value="0"/> - <control name="fzero_inittemp" value="100"/> - <control name="random_seed" value="0"/> - </solver> - <function name="fgen_1"> - <control name="desc" value=""/> - <control name="which" value="LagNormal"/> - <function name="Pulse1"> - <control name="startTime" value="0"/> - <control name="duration" value="1"/> - <control name="amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="timeToRepeat" value="10"/> - </function> - <function name="Pulse2"> - <control name="p1Start" value="0"/> - <control name="p1Duration" value="1"/> - <control name="p1Amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="p1TimeToRepeat" value="10"/> - <control name="p2Start" value="1"/> - <control name="p2Duration" value="2"/> - <control name="p2Amplitude" value="2"/> - <control name="p2TimeToRepeat" value="0"/> - </function> - <function name="Pulse3"> - <control name="p1Start" value="0"/> - <control name="p1Duration" value="1"/> - <control name="p1Amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="p1TimeToRepeat" value="10"/> - <control name="p2Start" value="1"/> - <control name="p2Duration" value="2"/> - <control name="p2Amplitude" value="2"/> - <control name="p2TimeToRepeat" value="0"/> - <control name="p3Start" value="3"/> - <control name="p3Duration" value="3"/> - <control name="p3Amplitude" value="3"/> - <control name="p3TimeToRepeat" value="0"/> - </function> - <function name="ExtendedPulse3"> - <control name="offset" value="0"/> - <control name="timeToRepeat" value="3"/> - <control name="p1Start" value="0"/> - <control name="p1Duration" value=".5"/> - <control name="p1Amplitude" value="1"/> - <control name="p1LoopCnt" value="1"/> - <control name="p1AmpIncr" value="0"/> - <control name="p2Start" value="1"/> - <control name="p2Duration" value=".5"/> - <control name="p2Amplitude" value="2"/> - <control name="p2LoopCnt" value="3"/> - <control name="p2AmpIncr" value=".5"/> - <control name="p3Start" value="2"/> - <control name="p3Duration" value=".5"/> - <control name="p3Amplitude" value="3"/> - <control name="p3LoopCnt" value="0"/> - <control name="p3AmpIncr" value="0"/> - </function> - <function name="Ramp"> - <control name="startTime" value="1"/> - <control name="duration" value="5"/> - <control name="amplitude" value="-1"/> - <control name="offset" value="1"/> - <control name="exponent" value="3"/> - <control name="timeToRepeat" value="10"/> - </function> - <function name="SquareWaveTrain"> - <control name="startTime" value="0"/> - <control name="duration" value="10"/> - <control name="amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="shapeFactor" value=".5"/> - <control name="phase" value="0"/> - <control name="period" value="5"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="SawtoothTrain"> - <control name="startTime" value="0"/> - <control name="duration" value="10"/> - <control name="amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="shapeFactor" value=".5"/> - <control name="phase" value="0"/> - <control name="period" value="5"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="SineTrain"> - <control name="startTime" value="0"/> - <control name="duration" value="5"/> - <control name="amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="phase" value="0"/> - <control name="period" value="5"/> - <control name="timeToRepeat" value="10"/> - </function> - <function name="Exponential"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="Gaussian"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="LagNormal"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1.3"/> - <control name="frPeak" value="1E-6"/> - <control name="upslope" value="Regular"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="Longtail"> - <control name="area" value="1"/> - <control name="frArea" value=".3"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1.3"/> - <control name="frPeak" value=".1"/> - <control name="upslope" value="Regular"/> - <control name="nexp" value="3"/> - <control name="rk1" value="1"/> - <control name="rk2" value=".2"/> - <control name="rk3" value=".04"/> - <control name="rk4" value=".008"/> - <control name="scaleta" value="1"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="GammaVar"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1.3"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="Poisson"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="RandomWalk"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="DataCurve"> - <control name="ndim" value="1"/> - <control name="dataSet" value=""/> - <control name="name" value=""/> - </function> - <control name="domain0" value="t"/> - <control name="domain1" value=""/> - <control name="domain2" value=""/> - </function> - <assign name="vars"> - <control name="t.min" value="0"/> - <control name="t.max" value="60"/> - <control name="t.delta" value=".1"/> - <control name="C0" value="0"/> - <control name="Volume" value=".05"/> - <control name="Flow" value=".01"/> - <control name="Area_in__init" value="0"/> - <control name="Area_out__init" value="0"/> - <control name="Cin" value="fgen_1"/> - </assign> - </vars> - <control name="desc" value=""/> - <control name="locked" value="false"/> - <control name="notes"></control> - </parset> - <parset name="CinConstant"> - <pargroups> - <pargroup name="inputs"> - <control name="t.min" value="0"/> - <control name="t.max" value="40"/> - <control name="t.delta" value=".1"/> - <control name="C0" value="0"/> - <control name="Volume" value=".05"/> - <control name="Flow" value=".01"/> - <control name="Area_in__init" value="0"/> - <control name="Area_out__init" value="0"/> - <control name="Cin" value="1"/> - </pargroup> - <pargroup name="solver"> - <control name="ode_which" value="Auto"/> - <control name="ode_Dopri5_reltol" value="1E-7"/> - <control name="ode_Dopri5_abstol" value="1E-7"/> - <control name="ode_Dopri5_nstep" value="100000"/> - <control name="ode_Dopri5_stiff" value="1000"/> - <control name="ode_Dopri5_round" value="2.3E-16"/> - <control name="ode_Dopri5_safety" value=".9"/> - <control name="ode_Dopri5_loselect" value=".2"/> - <control name="ode_Dopri5_hiselect" value="10"/> - <control name="ode_Dopri5_beta" value=".04"/> - <control name="ode_Euler_nstep" value="2"/> - <control name="ode_RK2_nstep" value="2"/> - <control name="ode_Fehlberg_minstep" value="1E-4"/> - <control name="ode_Fehlberg_maxstep" value=".1"/> - <control name="ode_Fehlberg_tol" value="1E-6"/> - <control name="ode_KM_minstep" value="1E-4"/> - <control name="ode_KM_maxstep" value=".1"/> - <control name="ode_KM_tol" value="1E-6"/> - <control name="ode_Radau_reltol" value="1E-4"/> - <control name="ode_Radau_abstol" value="1E-7"/> - <control name="ode_Radau_nstep" value="100000"/> - <control name="ode_Radau_round" value="1E-16"/> - <control name="ode_Radau_safety" value=".9"/> - <control name="ode_Radau_minord" value="3"/> - <control name="ode_Radau_maxord" value="7"/> - <control name="ode_Radau_initord" value="3"/> - <control name="ode_Radau_newton" value="7"/> - <control name="ode_Radau_jacob" value=".001"/> - <control name="ode_Radau_losize" value="1"/> - <control name="ode_Radau_hisize" value="1.2"/> - <control name="ode_Radau_loselect" value=".2"/> - <control name="ode_Radau_hiselect" value="8"/> - <control name="ode_Radau_locontract" value=".002"/> - <control name="ode_Radau_hicontract" value=".8"/> - <control name="ode_Radau_hiorder" value="1.2"/> - <control name="ode_Radau_loorder" value=".8"/> - <control name="ode_RK4_nstep" value="2"/> - <control name="ode_CVode_reltol" value="1E-7"/> - <control name="ode_CVode_abstol" value="1E-8"/> - <control name="ode_CVode_maxsteps" value="100000"/> - <control name="ode_CVode_stiff" value="false"/> - <control name="pde_which" value="MacCormack"/> - <control name="pde_MacCormack_FCT" value="false"/> - <control name="fzero_unbound" value=""/> - <control name="fzero_bound" value=""/> - <control name="fzero_errtol" value="1E-6"/> - <control name="fzero_maxcalls" value="500"/> - <control name="fzero_maxiters" value="100"/> - <control name="fzero_eps" value="1E-6"/> - <control name="fzero_istep" value=".01"/> - <control name="fzero_npoints" value="5"/> - <control name="fzero_randseed" value="0"/> - <control name="fzero_inittemp" value="100"/> - <control name="fzero_populationsize" value="50"/> - <control name="fzero_mutationrate" value=".1"/> - <control name="fzero_crossoverrate" value=".5"/> - <control name="fzero_mutationstep" value=".05"/> - <control name="fzero_elitecutoff" value=".5"/> - <control name="fzero_selectmethod" value="1"/> - <control name="random_seed" value="0"/> - </pargroup> - <pargroup name="memory"> - <control name="storeGrids" value="all"/> - <control name="t.nth" value="1"/> - </pargroup> - <pargroup name="function:fgen_1"> - <control name="desc" value=""/> - <control name="which" value="LagNormal"/> - <control name="Pulse1.startTime" value="0"/> - <control name="Pulse1.duration" value="1"/> - <control name="Pulse1.amplitude" value="1"/> - <control name="Pulse1.offset" value="0"/> - <control name="Pulse1.timeToRepeat" value="10"/> - <control name="Pulse2.p1Start" value="0"/> - <control name="Pulse2.p1Duration" value="1"/> - <control name="Pulse2.p1Amplitude" value="1"/> - <control name="Pulse2.offset" value="0"/> - <control name="Pulse2.p1TimeToRepeat" value="10"/> - <control name="Pulse2.p2Start" value="1"/> - <control name="Pulse2.p2Duration" value="2"/> - <control name="Pulse2.p2Amplitude" value="2"/> - <control name="Pulse2.p2TimeToRepeat" value="0"/> - <control name="Pulse3.p1Start" value="0"/> - <control name="Pulse3.p1Duration" value="1"/> - <control name="Pulse3.p1Amplitude" value="1"/> - <control name="Pulse3.offset" value="0"/> - <control name="Pulse3.p1TimeToRepeat" value="10"/> - <control name="Pulse3.p2Start" value="1"/> - <control name="Pulse3.p2Duration" value="2"/> - <control name="Pulse3.p2Amplitude" value="2"/> - <control name="Pulse3.p2TimeToRepeat" value="0"/> - <control name="Pulse3.p3Start" value="3"/> - <control name="Pulse3.p3Duration" value="3"/> - <control name="Pulse3.p3Amplitude" value="3"/> - <control name="Pulse3.p3TimeToRepeat" value="0"/> - <control name="ExtendedPulse3.offset" value="0"/> - <control name="ExtendedPulse3.timeToRepeat" value="3"/> - <control name="ExtendedPulse3.p1Start" value="0"/> - <control name="ExtendedPulse3.p1Duration" value=".5"/> - <control name="ExtendedPulse3.p1Amplitude" value="1"/> - <control name="ExtendedPulse3.p1LoopCnt" value="1"/> - <control name="ExtendedPulse3.p1AmpIncr" value="0"/> - <control name="ExtendedPulse3.p2Start" value="1"/> - <control name="ExtendedPulse3.p2Duration" value=".5"/> - <control name="ExtendedPulse3.p2Amplitude" value="2"/> - <control name="ExtendedPulse3.p2LoopCnt" value="3"/> - <control name="ExtendedPulse3.p2AmpIncr" value=".5"/> - <control name="ExtendedPulse3.p3Start" value="2"/> - <control name="ExtendedPulse3.p3Duration" value=".5"/> - <control name="ExtendedPulse3.p3Amplitude" value="3"/> - <control name="ExtendedPulse3.p3LoopCnt" value="0"/> - <control name="ExtendedPulse3.p3AmpIncr" value="0"/> - <control name="Ramp.startTime" value="1"/> - <control name="Ramp.duration" value="5"/> - <control name="Ramp.amplitude" value="-1"/> - <control name="Ramp.offset" value="1"/> - <control name="Ramp.exponent" value="3"/> - <control name="Ramp.timeToRepeat" value="10"/> - <control name="SquareWaveTrain.startTime" value="0"/> - <control name="SquareWaveTrain.duration" value="10"/> - <control name="SquareWaveTrain.amplitude" value="1"/> - <control name="SquareWaveTrain.offset" value="0"/> - <control name="SquareWaveTrain.shapeFactor" value=".5"/> - <control name="SquareWaveTrain.phase" value="0"/> - <control name="SquareWaveTrain.period" value="5"/> - <control name="SquareWaveTrain.timeToRepeat" value="0"/> - <control name="SawtoothTrain.startTime" value="0"/> - <control name="SawtoothTrain.duration" value="10"/> - <control name="SawtoothTrain.amplitude" value="1"/> - <control name="SawtoothTrain.offset" value="0"/> - <control name="SawtoothTrain.shapeFactor" value=".5"/> - <control name="SawtoothTrain.phase" value="0"/> - <control name="SawtoothTrain.period" value="5"/> - <control name="SawtoothTrain.timeToRepeat" value="0"/> - <control name="SineTrain.startTime" value="0"/> - <control name="SineTrain.duration" value="5"/> - <control name="SineTrain.amplitude" value="1"/> - <control name="SineTrain.offset" value="0"/> - <control name="SineTrain.phase" value="0"/> - <control name="SineTrain.period" value="5"/> - <control name="SineTrain.timeToRepeat" value="10"/> - <control name="Exponential.area" value="1"/> - <control name="Exponential.tMean" value="5"/> - <control name="Exponential.RD" value=".3"/> - <control name="Exponential.frPeak" value="1E-6"/> - <control name="Exponential.timeToRepeat" value="0"/> - <control name="Gaussian.area" value="1"/> - <control name="Gaussian.tMean" value="5"/> - <control name="Gaussian.RD" value=".3"/> - <control name="Gaussian.frPeak" value="1E-6"/> - <control name="Gaussian.timeToRepeat" value="0"/> - <control name="LagNormal.area" value="1"/> - <control name="LagNormal.tMean" value="5"/> - <control name="LagNormal.RD" value=".3"/> - <control name="LagNormal.skewn" value="1.3"/> - <control name="LagNormal.frPeak" value="1E-6"/> - <control name="LagNormal.upslope" value="Regular"/> - <control name="LagNormal.timeToRepeat" value="0"/> - <control name="Longtail.PDF" value="LagNormal"/> - <control name="Longtail.area" value="1"/> - <control name="Longtail.tMean" value="5"/> - <control name="Longtail.RD" value=".3"/> - <control name="Longtail.skewn" value="1.3"/> - <control name="Longtail.frPeak" value=".1"/> - <control name="Longtail.upslope" value="Regular"/> - <control name="Longtail.tORfr" value="frJoin"/> - <control name="Longtail.tJoin" value="10"/> - <control name="Longtail.frJoin" value=".25"/> - <control name="Longtail.expORpow" value="Exponential"/> - <control name="Longtail.nExp" value="1"/> - <control name="Longtail.w1" value="1"/> - <control name="Longtail.w2" value=".25"/> - <control name="Longtail.w3" value=".0625"/> - <control name="Longtail.w4" value=".015625"/> - <control name="Longtail.k1" value="1"/> - <control name="Longtail.k2" value=".25"/> - <control name="Longtail.k3" value=".0625"/> - <control name="Longtail.k4" value=".015625"/> - <control name="Longtail.nPow" value="1"/> - <control name="Longtail.wpow1" value="1"/> - <control name="Longtail.wpow2" value=".5"/> - <control name="Longtail.wpow3" value=".25"/> - <control name="Longtail.wpow4" value=".125"/> - <control name="Longtail.beta1" value="2"/> - <control name="Longtail.beta2" value="1.5"/> - <control name="Longtail.beta3" value="1"/> - <control name="Longtail.beta4" value=".5"/> - <control name="Longtail.timeToRepeat" value="0"/> - <control name="GammaVar.area" value="1"/> - <control name="GammaVar.tMean" value="5"/> - <control name="GammaVar.RD" value=".3"/> - <control name="GammaVar.skewn" value="1.3"/> - <control name="GammaVar.frPeak" value="1E-6"/> - <control name="GammaVar.timeToRepeat" value="0"/> - <control name="Poisson.area" value="1"/> - <control name="Poisson.tMean" value="5"/> - <control name="Poisson.RD" value=".3"/> - <control name="Poisson.frPeak" value="1E-6"/> - <control name="Poisson.timeToRepeat" value="0"/> - <control name="RandomWalk.area" value="1"/> - <control name="RandomWalk.tMean" value="5"/> - <control name="RandomWalk.RD" value=".3"/> - <control name="RandomWalk.skewn" value="1"/> - <control name="RandomWalk.frPeak" value="1E-6"/> - <control name="RandomWalk.timeToRepeat" value="0"/> - <control name="DataCurve.ndim" value="1"/> - <control name="DataCurve.dataSet" value=""/> - <control name="DataCurve.name" value=""/> - <control name="domain0" value="t"/> - <control name="domain1" value=""/> - <control name="domain2" value=""/> - </pargroup> - </pargroups> - <vars name="vars"> - <assign name="vars"> - <control name="t.min" value="0"/> - <control name="t.max" value="40"/> - <control name="t.delta" value=".1"/> - <control name="C0" value="0"/> - <control name="Volume" value=".05"/> - <control name="Flow" value=".01"/> - <control name="Area_in__init" value="0"/> - <control name="Area_out__init" value="0"/> - <control name="Cin" value="1"/> - </assign> - <solver name="solver"> - <control name="ode_which" value="Auto"/> - <control name="ode_Dopri5_reltol" value="1E-7"/> - <control name="ode_Dopri5_abstol" value="1E-7"/> - <control name="ode_Dopri5_nstep" value="100000"/> - <control name="ode_Dopri5_stiff" value="1000"/> - <control name="ode_Dopri5_round" value="2.3E-16"/> - <control name="ode_Dopri5_safety" value=".9"/> - <control name="ode_Dopri5_loselect" value=".2"/> - <control name="ode_Dopri5_hiselect" value="10"/> - <control name="ode_Dopri5_beta" value=".04"/> - <control name="ode_Euler_nstep" value="2"/> - <control name="ode_RK2_nstep" value="2"/> - <control name="ode_Fehlberg_minstep" value="1E-4"/> - <control name="ode_Fehlberg_maxstep" value=".1"/> - <control name="ode_Fehlberg_tol" value="1E-6"/> - <control name="ode_KM_minstep" value="1E-4"/> - <control name="ode_KM_maxstep" value=".1"/> - <control name="ode_KM_tol" value="1E-6"/> - <control name="ode_Radau_reltol" value="1E-4"/> - <control name="ode_Radau_abstol" value="1E-7"/> - <control name="ode_Radau_nstep" value="100000"/> - <control name="ode_Radau_round" value="1E-16"/> - <control name="ode_Radau_safety" value=".9"/> - <control name="ode_Radau_minord" value="3"/> - <control name="ode_Radau_maxord" value="7"/> - <control name="ode_Radau_initord" value="3"/> - <control name="ode_Radau_newton" value="7"/> - <control name="ode_Radau_jacob" value=".001"/> - <control name="ode_Radau_losize" value="1"/> - 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<control name="p1TimeToRepeat" value="10"/> - <control name="p2Start" value="1"/> - <control name="p2Duration" value="2"/> - <control name="p2Amplitude" value="2"/> - <control name="p2TimeToRepeat" value="0"/> - </function> - <function name="Pulse3"> - <control name="p1Start" value="0"/> - <control name="p1Duration" value="1"/> - <control name="p1Amplitude" value="1"/> - <control name="offset" value="0"/> - <control name="p1TimeToRepeat" value="10"/> - <control name="p2Start" value="1"/> - <control name="p2Duration" value="2"/> - <control name="p2Amplitude" value="2"/> - <control name="p2TimeToRepeat" value="0"/> - <control name="p3Start" value="3"/> - <control name="p3Duration" value="3"/> - <control name="p3Amplitude" value="3"/> - <control name="p3TimeToRepeat" value="0"/> - </function> - <function name="ExtendedPulse3"> - <control name="offset" value="0"/> - <control name="timeToRepeat" value="3"/> - <control name="p1Start" value="0"/> - <control name="p1Duration" value=".5"/> - <control name="p1Amplitude" value="1"/> - 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</function> - <function name="Gaussian"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="LagNormal"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1.3"/> - <control name="frPeak" value="1E-6"/> - <control name="upslope" value="Regular"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="Longtail"> - <control name="PDF" value="LagNormal"/> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1.3"/> - <control name="frPeak" value=".1"/> - <control name="upslope" value="Regular"/> - <control name="tORfr" value="frJoin"/> - <control name="tJoin" value="10"/> - <control name="frJoin" value=".25"/> - <control name="expORpow" value="Exponential"/> - <control name="nExp" value="1"/> - <control name="w1" value="1"/> - <control name="w2" value=".25"/> - <control name="w3" value=".0625"/> - <control name="w4" value=".015625"/> - <control name="k1" value="1"/> - <control name="k2" value=".25"/> - <control name="k3" value=".0625"/> - <control name="k4" value=".015625"/> - <control name="nPow" value="1"/> - <control name="wpow1" value="1"/> - <control name="wpow2" value=".5"/> - <control name="wpow3" value=".25"/> - <control name="wpow4" value=".125"/> - <control name="beta1" value="2"/> - <control name="beta2" value="1.5"/> - <control name="beta3" value="1"/> - <control name="beta4" value=".5"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="GammaVar"> - <control name="area" value="1"/> - <control name="tMean" value="5"/> - <control name="RD" value=".3"/> - <control name="skewn" value="1.3"/> - <control name="frPeak" value="1E-6"/> - <control name="timeToRepeat" value="0"/> - </function> - <function name="Poisson"> - 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<control name="nCol" value="1"/> - <control name="liveUpdate" value="false"/> - <control name="showConf" value="true"/> - <control name="showXRule" value="false"/> - <control name="xRule" value=".5"/> - <control name="showYRule" value="false"/> - <control name="yRule" value=".5"/> - <control name="showMinMaxSliders" value="false"/> - <control name="animeDuration" value="10"/> - <control name="animeRate" value="10"/> - <control name="animeLoop" value="false"/> - <control name="animeDir" value="true"/> - <plot name="plot0"> - <control name="nItems" value="2"/> - <control name="title" value="Cout (solid black), Canalytic (dashed red)"/> - <control name="titleX" value=".5"/> - <control name="titleY" value="1"/> - <control name="footer" value="%TIME"/> - <control name="footerX" value="0"/> - <control name="footerY" value="0"/> - <control name="showLegend" value="true"/> - <control name="showTitle" value="true"/> - <control name="showFooter" value="false"/> - <control name="legendX" value=".8447205"/> - <control name="legendY" value=".40066225"/> - <control name="style" value="XY plot"/> - <control name="confItem" value="1"/> - <control name="confAxis" value="Y"/> - <plotaxis name="xaxis"> - <control name="log" value="linear"/> - <control name="autoscale" value="true"/> - <control name="label" value="Time, sec"/> - <control name="showLabel" value="true"/> - <control name="min" value="0"/> - <control name="max" value="1"/> - </plotaxis> - <plotaxis name="yaxis"> - <control name="log" value="linear"/> - <control name="autoscale" value="true"/> - <control name="label" value="Concentration, mM"/> - <control name="showLabel" value="true"/> - <control name="min" value="0"/> - <control name="max" value="1"/> - </plotaxis> - <plotaxis name="zaxis"> - <control name="log" value="linear"/> - <control name="autoscale" value="true"/> - <control name="label" value="axis label"/> - <control name="showLabel" value="true"/> - <control name="min" value="0"/> - <control name="max" value="1"/> - </plotaxis> - <plotitem name="item0"> - <control name="src" value="Comp1Flow"/> - <control name="expr" value="Cout"/> - <control name="color" value="black"/> - <control name="size" value="small"/> - <control name="shape" value="none"/> - <control name="line" value="solid"/> - <control name="thickness" value="medium"/> - <control name="colorMap" value="none"/> - <control name="palette" value="heat"/> - <control name="show" value="true"/> - <control name="xExpr" value=""/> - <control name="yExpr" value=""/> - </plotitem> - <plotitem name="item1"> - <control name="src" value="Comp1Flow"/> - <control name="expr" value="Canalytic"/> - <control name="color" value="red"/> - <control name="size" value="small"/> - <control name="shape" value="none"/> - <control name="line" value="shortdash"/> - <control name="thickness" value="medium"/> - <control name="colorMap" value="none"/> - <control name="palette" value="heat"/> - <control name="show" value="true"/> - <control name="xExpr" value=""/> - <control name="yExpr" value=""/> - </plotitem> - </plot> - <plot name="plot1"> - <control name="nItems" value="1"/> - <control name="title" value="Error"/> - <control name="titleX" value=".5"/> - <control name="titleY" value="1"/> - <control name="footer" value="%TIME"/> - <control name="footerX" value="0"/> - <control name="footerY" value="0"/> - <control name="showLegend" value="true"/> - <control name="showTitle" value="true"/> - <control name="showFooter" value="false"/> - <control name="legendX" value=".93167702"/> - <control name="legendY" value=".35430464"/> - <control name="style" value="XY plot"/> - <control name="confItem" value="0"/> - <control name="confAxis" value="Y"/> - <plotaxis name="xaxis"> - <control name="log" value="linear"/> - <control name="autoscale" value="true"/> - <control name="label" value="Time, sec"/> - <control name="showLabel" value="true"/> - <control name="min" value="0"/> - <control name="max" value="1"/> - </plotaxis> - <plotaxis name="yaxis"> - <control name="log" value="linear"/> - 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</plotitem> - </plot> - </plotpage> - </project> -</JSim>