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deltaNotchCell.cpp
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Created
Sun, Oct 13, 01:28
Size
2 KB
Mime Type
text/x-c
Expires
Tue, Oct 15, 01:28 (1 d, 23 h)
Engine
blob
Format
Raw Data
Handle
21608693
Attached To
R9411 tisue modeling
deltaNotchCell.cpp
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#include "deltaNotchCell.hpp"
void
DeltaNotchCell
::
operator
()
(
const
state_type
&
y
,
state_type
&
dydt
,
const
double
t
)
{
uint
nbcells
=
lattice
->
getNbCells
();
double
a
=
0.1
;
// diffusion length scale
for
(
uint
c
=
0
;
c
<
nbcells
;
c
++
){
Cell
&
ce
=
lattice
->
getCell
(
c
);
uint
sind
=
ce
.
stateVectorIndex
();
double
no
=
y
[
sind
];
double
del
=
y
[
sind
+
1
];
BoundaryIterator
it
(
&
ce
);
double
dout
=
0
;
double
totper
=
0
;
for
(
Boundary
*
b
=
it
.
first
();
!
it
.
isLast
();
b
=
it
.
next
()){
if
(
b
->
opposite
()
!=
NULL
){
uint
ind
=
b
->
neighbor
()
->
stateVectorIndex
();
// index for cell state
// double len = b->length();
double
len
=
b
->
scaledLength
(
lattice
->
getScale
());
// len = max(len,0.1);
if
(
len
>
0.000001
){
len
=
a
/
(
1
-
exp
(
-
a
/
len
));}
else
{
len
=
a
;}
dout
+=
len
*
y
[
ind
+
1
];
totper
+=
len
;
}
}
// if(dout>0.0000001){dout = 1+1/(1-exp(-1/dout));}else{dout=1;};
double
bn
=
notchProduction
(
dout
);
double
bd
=
getDeltaProduction
(
no
);
double
dn
=
bn
-
gn
*
no
;
double
dd
=
bd
-
gd
*
del
;
//-kcm*si
// cout<<del<<": "<<bd<<" "<<gd<<" "<<endl;
double
fac
=
1e13
;
//=exp(30)
dydt
[
sind
]
=
dn
;
dydt
[
sind
+
1
]
=
dd
;
//*fac/(exp(del)+fac);
}
}
void
DeltaNotchCell
::
initState
(
double
*
s
){
int
n
=
lattice
->
getNbCells
();
for
(
int
c
=
0
;
c
<
n
;
c
++
){
uint
idx
=
lattice
->
getCell
(
c
).
stateVectorIndex
();
state
[
idx
]
=
s
[
c
*
2
+
1
];
state
[
idx
+
1
]
=
s
[
c
*
2
];
}
}
// void DeltaNotchCell::writeState(){//const state_type y,const double t){
// cout<<"state "<<state_dim<<": ";
// for(uint i=0;i<state_dim;i++){
// cout<<i<<": "<<state[i]<<"; ";
// }
// cout<<endl;
// }
// void DeltaNotchCell::initState(){
// void *pt = (void *)&state;
// lattice->forAllCellsAndBoundaries(DeltaNotchCell::initCellState,pt,NULL,NULL);
// }
// uint DeltaNotchCell::setStateVectorIndex(){
// uint cnt=0;
// visitorParams vp(&cnt, this);
// lattice->forAllCellsAndBoundaries(DeltaNotchCell::setCellIndex,
// (void *)&vp,NULL,NULL);
// return cnt;
// }
// void DeltaNotchCell::initCellState(Cell *ce, void *pt){
// state_type *y= (state_type*)pt;
// uint ind = ce->stateVectorIndex();
// (*y)[ind]=0.9+0.2*(rand()/(double)RAND_MAX);
// (*y)[ind+1]=0.9+0.2*(rand()/(double)RAND_MAX);;
// }
// void DeltaNotchCell::setCellIndex(Cell *ce, void *pt){
// visitorParams *vp = (visitorParams *) pt;
// uint *idx = vp->cnt;
// ce->setStateVectorIndex(*idx);
// *idx += vp->dn->cellStateDim();
// }
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