Re: How to make fitting code using NDSolve?

• To: mathgroup at smc.vnet.net
• Subject: [mg127764] Re: How to make fitting code using NDSolve?
• From: christopher arthur <chris.arthur1 at gmail.com>
• Date: Mon, 20 Aug 2012 21:28:23 -0400 (EDT)
• Delivered-to: l-mathgroup@mail-archive0.wolfram.com
• Delivered-to: l-mathgroup@wolfram.com
• Delivered-to: mathgroup-newout@smc.vnet.net
• Delivered-to: mathgroup-newsend@smc.vnet.net
• References: <20120820081427.111DE6838@smc.vnet.net>

```Subscript[Dye, 0] hasn't been a good variable name...maybe in v8 it doesn't matter.  Try just Dye0.

Chris

JYeom a écrit :
> Hello,
> I am trying to fit some basic data to a partial differential equation- here are the data points:
>
> data = {
>   {2.113, 2.915*^-7}, {2.256, 2.758*^-7}, {2.303, 2.567*^-7}, {2.493,
>    2.343*^-7}, {2.635, 2.085*^-7}, {2.825, 1.838*^-7}, {3.015,
>    1.614*^-7}, {3.205, 1.412*^-7}, {3.538, 1.199*^-7}, {3.775,
>    1.03*^-7}, {4.108, 8.173*^-8}, {4.487, 6.266*^-8}, {4.915,
>    4.695*^-8}, {5.295, 3.349*^-8}, {5.912, 2.34*^-8}, {6.672,
>    1.554*^-8}, {7.527, 7.692*^-9}, {8.524, 5.448*^-9}, {9.426,
>    4.326*^-9}, {10.23, 3.205*^-9}, {10.99,
>    2.083*^-9}, {11.99, -1.608*^-10}
>   }
>
> And there are four parameters to fit in our fitting equation:
>
> model[ka_?NumberQ, kr_?NumberQ, kd_?NumberQ,
>   kb_?NumberQ] := (model[ka, kr, kd, kb] =
>    First[Subscript[Dye, 0] /. NDSolve[{
>        Derivative[1][Subscript[Dye, 0]][
>          t] ==\[VeryThinSpace]-ka Subscript[Dye, 0][t] +
>          kr  Subscript[Dyes, 0][t], Subscript[Dye, 0][0] == 1.22 10^-6,
>        Derivative[1][Subscript[Dye, 1]][
>          t] == -ka Subscript[Dye, 1][t] + kr  Subscript[Dyes, 1][t],
>        Subscript[Dye, 1][0] == 0,
>
>        Derivative[1][Subscript[Dyes, 0]][t] ==
>         ka  Subscript[Dye, 0][t] - kr  Subscript[Dyes, 0][t] -
>          kd  Subscript[CI, 0][t] Subscript[Dyes, 0][t] -
>          kd /2 * Subscript[CI, 1][t] Subscript[Dyes, 1][t],
>        Subscript[Dyes, 0][0] == 0,
>        Derivative[1][Subscript[Dyes, 1]][t] ==
>         ka Subscript[Dye, 1][t] -
>          kd Subscript[CI, 1][t] Subscript[Dyes, 0][t] -
>          kr Subscript[Dyes, 1][t] -
>          kd  Subscript[CI, 0][t] Subscript[Dyes, 1][t],
>        Subscript[Dyes, 1][0] == 0,
>
>        Derivative[1][Subscript[CI, 0]][
>          t] == -kd Subscript[CI, 0][t] Subscript[Dyes, 0][t] -
>          kd/2*  Subscript[CI, 1][t] Subscript[Dyes, 1][t] -
>          kb Subscript[CI, 0][t] Subscript[HDye, 0][t] -
>          kb/2* Subscript[CI, 1][t] Subscript[HDye, 1][t],
>        Subscript[CI, 0][0] == 3.18 10^-3,
>        Derivative[1][Subscript[CI, 1]][
>          t] == -kd Subscript[CI, 1][t] Subscript[Dyes, 0][t] -
>          kd/2*  Subscript[CI, 0][t] Subscript[Dyes, 1][t] -
>          kb Subscript[CI, 1][t] Subscript[HDye, 0][t] -
>          kb/2*Subscript[CI, 0][t] Subscript[HDye, 1][t],
>        Subscript[CI, 1][0] == 0,
>
>        Derivative[1][Subscript[HDye, 0]][t] ==
>         kd  Subscript[CI, 0][t] Subscript[Dyes, 0][t] +
>          kd/2* Subscript[CI, 1][t] Subscript[Dyes, 1][t] -
>          kb  Subscript[CI, 0][t] Subscript[HDye, 0][t] -
>          kb /2* Subscript[CI, 1][t] Subscript[HDye, 1][t],
>        Subscript[HDye, 0][0] == 0,
>        Derivative[1][Subscript[HDye, 1]][t] ==
>         kd  Subscript[CI, 1][t] Subscript[Dyes, 0][t] +
>          kd  Subscript[CI, 0][t] Subscript[Dyes, 1][t] -
>          kb Subscript[CI, 1][t] Subscript[HDye, 0][t] -
>          kb  Subscript[CI, 0][t] Subscript[HDye, 1][t],
>        Subscript[HDye, 1][0] == 0
>        }, {Subscript[Dye, 0][t], Subscript[Dyes, 0][t],
>        Subscript[CI, 0][t], Subscript[HDye, 0][t],
>        Subscript[Dye, 1][t], Subscript[Dyes, 1][t],
>        Subscript[CI, 1][t], Subscript[HDye, 1][t]}, {t, 0, 12}]])
>
> In the NDSolve, what we want to fit is Dye0[t]. So we wrote code for fitting using FindFit:
>
> fit = FindFit[data,
>   model[ ka, kr, kd, kb][Subscript[Dye,
>    0]], {{ka, 10^(-4)}, {kr, 10^(-4)}, {kd, 500}, {kb, 500}},
>   Subscript[Dye, 0]]
>
> However, we encountered the error message like this:
>
> FindFit::nrlnum: "The function value {-2.915*10^-7+Subscript[Dye, 0][2.113],-2.758*10^-7+Subscript[Dye, 0][2.256],-2.567*10^-7+Subscript[Dye, 0][2.303],<<16>>,-3.205*10^-9+Subscript[Dye, 0][10.23],-2.083*10^-9+Subscript[Dye,0][10.99],1.608*10^-10+Subscript[Dye, 0][11.99]} is not a list of real numbers with dimensions {22} at {ka,kr,kd,kb} = {0.0001,0.0001,500.,500.}."
>
> The desirable solution for parameter is around ka= 0.67, kr = 10^(-3), kd=1600, kb=1600.
>
> Does anyone know what I am doing wrong?
>
>
>

```

• Prev by Date: Re: V8 slow like a snail
• Next by Date: Re: Thread::tdlen: Objects of unequal length in
• Previous by thread: How to make fitting code using NDSolve?
• Next by thread: Re: How to make fitting code using NDSolve?