naginterfaces.library.pde.dim1_parab_remesh_fd¶
- naginterfaces.library.pde.dim1_parab_remesh_fd(npde, m, ts, tout, pdedef, bndary, uvinit, u, x, nv, xi, rtol, atol, itol, norm, laopt, algopt, remesh, xfix, nrmesh, dxmesh, trmesh, ipminf, comm, itask, itrace, ind, odedef=None, xratio=1.5, con=None, monitf=None, lrsave_estim=0, lisave_estim=0, data=None, io_manager=None, spiked_sorder='C')[source]¶
dim1_parab_remesh_fd
integrates a system of linear or nonlinear parabolic partial differential equations (PDEs) in one space variable, with scope for coupled ordinary differential equations (ODEs), and automatic adaptive spatial remeshing. The spatial discretization is performed using finite differences, and the method of lines is employed to reduce the PDEs to a system of ODEs. The resulting system is solved using a Backward Differentiation Formula (BDF) method or a Theta method (switching between Newton’s method and functional iteration).For full information please refer to the NAG Library document for d03pp
https://www.nag.com/numeric/nl/nagdoc_29/flhtml/d03/d03ppf.html
- Parameters
- npdeint
The number of PDEs to be solved.
- mint
The coordinate system used:
Indicates Cartesian coordinates.
Indicates cylindrical polar coordinates.
Indicates spherical polar coordinates.
- tsfloat
The initial value of the independent variable .
- toutfloat
The final value of to which the integration is to be carried out.
- pdedefcallable (p, q, r, ires) = pdedef(t, x, u, ux, v, vdot, ires, data=None)
must evaluate the functions , and which define the system of PDEs.
The functions may depend on , , , and . may depend linearly on . is called approximately midway between each pair of mesh points in turn by
dim1_parab_remesh_fd
.- Parameters
- tfloat
The current value of the independent variable .
- xfloat
The current value of the space variable .
- ufloat, ndarray, shape
contains the value of the component , for .
- uxfloat, ndarray, shape
contains the value of the component , for .
- vfloat, ndarray, shape
If , contains the value of the component , for .
- vdotfloat, ndarray, shape
If , contains the value of component , for .
Note: , for , may only appear linearly in , for .
- iresint
Set to or .
- dataarbitrary, optional, modifiable in place
User-communication data for callback functions.
- Returns
- pfloat, array-like, shape
must be set to the value of , for , for .
- qfloat, array-like, shape
must be set to the value of , for .
- rfloat, array-like, shape
must be set to the value of , for .
- iresint
Should usually remain unchanged. However, you may set to force the integration function to take certain actions as described below:
Indicates to the integrator that control should be passed back immediately to the calling function with the error indicator set to = 6.
Indicates to the integrator that the current time step should be abandoned and a smaller time step used instead. You may wish to set when a physically meaningless input or output value has been generated. If you consecutively set ,
dim1_parab_remesh_fd
returns to the calling function with the error indicator set to = 4.
- bndarycallable (beta, gamma, ires) = bndary(t, u, ux, v, vdot, ibnd, ires, data=None)
must evaluate the functions and which describe the boundary conditions, as given in [equation].
- Parameters
- tfloat
The current value of the independent variable .
- ufloat, ndarray, shape
contains the value of the component at the boundary specified by , for .
- uxfloat, ndarray, shape
contains the value of the component at the boundary specified by , for .
- vfloat, ndarray, shape
If , contains the value of the component , for .
- vdotfloat, ndarray, shape
contains the value of component , for .
Note: , for , may only appear linearly in , for .
- ibndint
Specifies which boundary conditions are to be evaluated.
must set up the coefficients of the left-hand boundary, .
must set up the coefficients of the right-hand boundary, .
- iresint
Set to or .
- dataarbitrary, optional, modifiable in place
User-communication data for callback functions.
- Returns
- betafloat, array-like, shape
must be set to the value of at the boundary specified by , for .
- gammafloat, array-like, shape
must be set to the value of at the boundary specified by , for .
- iresint
Should usually remain unchanged. However, you may set to force the integration function to take certain actions as described below:
Indicates to the integrator that control should be passed back immediately to the calling function with the error indicator set to = 6.
Indicates to the integrator that the current time step should be abandoned and a smaller time step used instead. You may wish to set when a physically meaningless input or output value has been generated. If you consecutively set ,
dim1_parab_remesh_fd
returns to the calling function with the error indicator set to = 4.
- uvinitcallable (u, v) = uvinit(npde, x, xi, nv, data=None)
must supply the initial values of and for all values of in the interval .
- Parameters
- npdeint
The number of PDEs in the system.
- xfloat, ndarray, shape
The current mesh. contains the value of , for .
- xifloat, ndarray, shape
If , contains the value of the ODE/PDE coupling point, , for .
- nvint
The number of coupled ODEs in the system.
- dataarbitrary, optional, modifiable in place
User-communication data for callback functions.
- Returns
- ufloat, array-like, shape
contains the value of the component , for , for .
- vfloat, array-like, shape
contains the value of component , for .
- ufloat, array-like, shape
If the value of must be unchanged from the previous call.
- xfloat, array-like, shape
The initial mesh points in the space direction. must specify the left-hand boundary, , and must specify the right-hand boundary, .
- nvint
The number of coupled ODE in the system.
- xifloat, array-like, shape
If , , for , must be set to the ODE/PDE coupling points.
- rtolfloat, array-like, shape
Note: the required length for this argument is determined as follows: if : ; if : ; otherwise: .
The relative local error tolerance.
- atolfloat, array-like, shape
Note: the required length for this argument is determined as follows: if : ; if : ; otherwise: .
The absolute local error tolerance.
- itolint
A value to indicate the form of the local error test. indicates to
dim1_parab_remesh_fd
whether to interpret either or both of or as a vector or scalar. The error test to be satisfied is , where is defined as follows:1
scalar
scalar
2
scalar
vector
3
vector
scalar
4
vector
vector
In the above, denotes the estimated local error for the th component of the coupled PDE/ODE system in time, , for .
The choice of norm used is defined by the argument .
- normstr, length 1
The type of norm to be used.
Maximum norm.
Averaged norm.
If denotes the norm of the vector of length , then for the averaged norm
while for the maximum norm
See the description of for the formulation of the weight vector .
- laoptstr, length 1
The type of matrix algebra required.
Full matrix methods to be used.
Banded matrix methods to be used.
Sparse matrix methods to be used.
Note: you are recommended to use the banded option when no coupled ODEs are present (i.e., ).
- algoptfloat, array-like, shape
May be set to control various options available in the integrator. If you wish to employ all the default options, should be set to . Default values will also be used for any other elements of set to zero. The permissible values, default values, and meanings are as follows:
Selects the ODE integration method to be used. If , a BDF method is used and if , a Theta method is used. The default value is .
If , , for are not used.
Specifies the maximum order of the BDF integration formula to be used. may be , , , or . The default value is .
Specifies what method is to be used to solve the system of nonlinear equations arising on each step of the BDF method. If a modified Newton iteration is used and if a functional iteration method is used. If functional iteration is selected and the integrator encounters difficulty, there is an automatic switch to the modified Newton iteration. The default value is .
Specifies whether or not the Petzold error test is to be employed. The Petzold error test results in extra overhead but is more suitable when algebraic equations are present, such as , for , for some or when there is no dependence in the coupled ODE system. If , the Petzold test is used. If , the Petzold test is not used. The default value is .
If , , for , are not used.
Specifies the value of Theta to be used in the Theta integration method. . The default value is .
Specifies what method is to be used to solve the system of nonlinear equations arising on each step of the Theta method. If , a modified Newton iteration is used and if , a functional iteration method is used. The default value is .
Specifies whether or not the integrator is allowed to switch automatically between modified Newton and functional iteration methods in order to be more efficient. If , switching is allowed and if , switching is not allowed. The default value is .
Specifies a point in the time direction, , beyond which integration must not be attempted. The use of is described under the argument . If , a value of for , say, should be specified even if subsequently specifies that will not be used.
Specifies the minimum absolute step size to be allowed in the time integration. If this option is not required, should be set to .
Specifies the maximum absolute step size to be allowed in the time integration. If this option is not required, should be set to .
Specifies the initial step size to be attempted by the integrator. If , the initial step size is calculated internally.
Specifies the maximum number of steps to be attempted by the integrator in any one call. If , no limit is imposed.
Specifies what method is to be used to solve the nonlinear equations at the initial point to initialize the values of , , and . If , a modified Newton iteration is used and if , functional iteration is used. The default value is .
and are used only for the sparse matrix algebra option, .
Governs the choice of pivots during the decomposition of the first Jacobian matrix. It should lie in the range , with smaller values biasing the algorithm towards maintaining sparsity at the expense of numerical stability. If lies outside this range then the default value is used. If the functions regard the Jacobian matrix as numerically singular then increasing towards may help, but at the cost of increased fill-in. The default value is .
Is used as a relative pivot threshold during subsequent Jacobian decompositions (see ) below which an internal error is invoked. If is greater than no check is made on the pivot size, and this may be a necessary option if the Jacobian is found to be numerically singular (see ). The default value is .
- remeshbool
Indicates whether or not spatial remeshing should be performed.
Indicates that spatial remeshing should be performed as specified.
Indicates that spatial remeshing should be suppressed.
Note: should not be changed between consecutive calls to
dim1_parab_remesh_fd
. Remeshing can be switched off or on at specified times by using appropriate values for the arguments and at each call.- xfixfloat, array-like, shape
, for , must contain the value of the coordinate at the th fixed mesh point.
- nrmeshint
Specifies the spatial remeshing frequency and criteria for the calculation and adoption of a new mesh.
Indicates that a new mesh is adopted according to the argument . The mesh is tested every timesteps.
Indicates that remeshing should take place just once at the end of the first time step reached when .
Indicates that remeshing will take place every time steps, with no testing using .
Note: may be changed between consecutive calls to
dim1_parab_remesh_fd
to give greater flexibility over the times of remeshing.- dxmeshfloat
Determines whether a new mesh is adopted when is set less than zero. A possible new mesh is calculated at the end of every time steps, but is adopted only if
or
thus imposes a lower limit on the difference between one mesh and the next.
- trmeshfloat
Specifies when remeshing will take place when is set to zero. Remeshing will occur just once at the end of the first time step reached when is greater than .
Note: may be changed between consecutive calls to
dim1_parab_remesh_fd
to force remeshing at several specified times.- ipminfint
The level of trace information regarding the adaptive remeshing. Details are directed to the file object associated with the advisory I/O unit (see
FileObjManager
).No trace information.
Brief summary of mesh characteristics.
More detailed information, including old and new mesh points, mesh sizes and monitor function values.
- commdict, communication object, modified in place
Note: this argument will be (re-)initialized when it is an empty
dict
or under the following condition: .Communication structure.
On initial entry: need not be set.
- itaskint
Specifies the task to be performed by the ODE integrator.
Normal computation of output values at .
One step and return.
Stop at first internal integration point at or beyond .
Normal computation of output values at but without overshooting where is described under the argument .
Take one step in the time direction and return, without passing , where is described under the argument .
- itraceint
The level of trace information required from
dim1_parab_remesh_fd
and the underlying ODE solver:No output is generated.
Only warning messages from the PDE solver are printed.
Output from the underlying ODE solver is printed. This output contains details of Jacobian entries, the nonlinear iteration and the time integration during the computation of the ODE system.
Output from the underlying ODE solver is similar to that produced when , except that the advisory messages are given in greater detail.
Output from the underlying ODE solver is similar to that produced when , except that the advisory messages are given in greater detail.
- indint
Must be set to or .
Starts or restarts the integration in time.
Continues the integration after an earlier exit from the function. In this case, only the argument and the remeshing arguments , , , and may be reset between calls to
dim1_parab_remesh_fd
.- odedefNone or callable (f, ires) = odedef(t, v, vdot, xi, ucp, ucpx, rcp, ucpt, ucptx, ires, data=None), optional
Note: if this argument is None then a NAG-supplied facility will be used.
must evaluate the functions , which define the system of ODEs, as given in (3).
If you wish to compute the solution of a system of PDEs only (), must be None.
- Parameters
- tfloat
The current value of the independent variable .
- vfloat, ndarray, shape
If , contains the value of the component , for .
- vdotfloat, ndarray, shape
If , contains the value of component , for .
- xifloat, ndarray, shape
If , contains the ODE/PDE coupling points, , for .
- ucpfloat, ndarray, shape
If , contains the value of at the coupling point , for , for .
- ucpxfloat, ndarray, shape
If , contains the value of at the coupling point , for , for .
- rcpfloat, ndarray, shape
contains the value of the flux at the coupling point , for , for .
- ucptfloat, ndarray, shape
If , contains the value of at the coupling point , for , for .
- ucptxfloat, ndarray, shape
contains the value of at the coupling point , for , for .
- iresint
The form of that must be returned in the array .
Equation (5) must be used.
Equation (6) must be used.
- dataarbitrary, optional, modifiable in place
User-communication data for callback functions.
- Returns
- ffloat, array-like, shape
On exit, must contain the th component of as specified by the input value of .
- iresint
Should usually remain unchanged. However, you may reset to force the integration function to take certain actions as described below:
Indicates to the integrator that control should be passed back immediately to the calling function with the error indicator set to = 6.
Indicates to the integrator that the current time step should be abandoned and a smaller time step used instead. You may wish to set when a physically meaningless input or output value has been generated. If you consecutively set ,
dim1_parab_remesh_fd
returns to the calling function with the error indicator set to = 4.
- xratiofloat, optional
An input bound on the adjacent mesh ratio (greater than and typically in the range to ). The remeshing functions will attempt to ensure that
- conNone or float, optional
Note: if this argument is None then a default value will be used, determined as follows: .
An input bound on the sub-integral of the monitor function over each space step. The remeshing functions will attempt to ensure that
(see Furzeland (1984)). gives you more control over the mesh distribution e.g., decreasing allows more clustering. A typical value is , but you are encouraged to experiment with different values. Its value is not critical and the mesh should be qualitatively correct for all values in the range given below.
- monitfNone or callable fmon = monitf(t, x, u, r, data=None), optional
Note: if this argument is None then a NAG-supplied facility will be used.
must supply and evaluate a remesh monitor function to indicate the solution behaviour of interest.
If you specify , i.e., no remeshing, will not be called and may be None.
- Parameters
- tfloat
The current value of the independent variable .
- xfloat, ndarray, shape
The current mesh. contains the value of , for .
- ufloat, ndarray, shape
contains the value of at and time , for , for .
- rfloat, ndarray, shape
contains the value of at and time , for , for .
- dataarbitrary, optional, modifiable in place
User-communication data for callback functions.
- Returns
- fmonfloat, array-like, shape
must contain the value of the monitor function at mesh point .
- lrsave_estimint, optional
When performing a new integration, the size to use for the communication array [‘rsave’].
Otherwise, the value has no effect.
An initial estimate for an adequate is computed by the function.
If your supplied is too small, the estimated value will be used instead.
In some cases the estimated value will be sufficient for continuation calls to the function.
When , even the function’s initial estimated value of may be too small.
If so, the function returns with = 15.
You are advised to call the function again with and set to at least the lower-bound value returned in , then make the desired subsequent calls with , then repeat the process if necessary.
- lisave_estimint, optional
When performing a new integration, the size to use for the communication array [‘isave’].
Otherwise, the value has no effect.
An initial estimate for an adequate is computed by the function.
If your supplied is too small, the estimated value will be used instead.
In some cases the estimated value will be sufficient for continuation calls to the function.
When , even the function’s initial estimated value of may be too small.
If so, the function returns with = 15.
You are advised to call the function again with and set to at least the lower-bound value returned in , then make the desired subsequent calls with , then repeat the process if necessary.
- dataarbitrary, optional
User-communication data for callback functions.
- io_managerFileObjManager, optional
Manager for I/O in this routine.
- spiked_sorderstr, optional
If in or in are spiked (i.e., have unit extent in all but one dimension, or have size ), selects the storage order to associate with them in the NAG Engine:
- spiked_sorder =
row-major storage will be used;
- spiked_sorder =
column-major storage will be used.
- Returns
- tsfloat
The value of corresponding to the solution values in . Normally .
- ufloat, ndarray, shape
The computed solution , for , for , and , for , evaluated at , as follows:
contain , for , for , and
contain , for .
- xfloat, ndarray, shape
The final values of the mesh points.
- indint
.
- lrsave_minint
A lower bound on the sufficient size for [‘rsave’].
- lisave_minint
A lower bound on the sufficient size for [‘isave’].
- Raises
- NagValueError
- (errno )
On entry, on initial entry .
Constraint: on initial entry .
- (errno )
On entry, the point does not coincide with any : and .
- (errno )
On entry, , and .
Constraint: .
- (errno )
On entry, at least one point in lies outside : and .
- (errno )
On entry, , and .
Constraint: .
- (errno )
On entry, and .
Constraint: corresponding elements and cannot both be .
- (errno )
On entry, and .
Constraint: .
- (errno )
On entry, and .
Constraint: .
- (errno )
On entry, .
Constraint: , , or .
- (errno )
On entry, , , and .
Constraint: .
- (errno )
On entry, , , and .
Constraint: .
- (errno )
On entry, , .
Constraint: .
- (errno )
On entry, , .
Constraint: .
- (errno )
On entry, .
Constraint: .
- (errno )
On entry, .
Constraint: , or .
- (errno )
On entry, .
Constraint: .
- (errno )
On entry, , .
Constraint: .
- (errno )
On entry, .
Constraint: .
- (errno )
On entry, and .
Constraint: when .
- (errno )
On entry, and .
Constraint: when .
- (errno )
On entry, .
Constraint: .
- (errno )
On entry, .
Constraint: .
- (errno )
On entry, and .
Constraint: or
- (errno )
On entry, .
Constraint: , or .
- (errno )
On entry, .
Constraint: , or .
- (errno )
On entry, .
Constraint: or .
- (errno )
On entry, .
Constraint: or .
- (errno )
On entry, .
Constraint: , , , or .
- (errno )
On entry, .
Constraint: .
- (errno )
On entry, is too small: and .
- (errno )
On entry, and .
Constraint: .
- (errno )
In setting up the ODE system an internal auxiliary was unable to initialize the derivative. This could be due to your setting in or .
- (errno )
Singular Jacobian of ODE system. Check problem formulation.
- (errno )
and were too small to start integration.
- (errno )
set to an invalid value in call to , , or .
- (errno )
Serious error in internal call to an auxiliary. Increase for further details.
- (errno )
Error during Jacobian formulation for ODE system. Increase for further details.
- (errno )
In solving ODE system, the maximum number of steps has been exceeded. .
- (errno )
Flux function appears to depend on time derivatives.
- (errno )
has been changed between calls to
dim1_parab_remesh_fd
.
- Warns
- NagAlgorithmicWarning
- (errno )
Underlying ODE solver cannot make further progress from the point with the supplied values of and . .
- (errno )
Repeated errors in an attempted step of underlying ODE solver. Integration was successful as far as : .
- (errno )
In evaluating residual of ODE system, has been set in , , or . Integration is successful as far as : .
- (errno )
Integration completed, but small changes in or are unlikely to result in a changed solution.
- (errno )
Zero error weights encountered during time integration.
- (errno )
When using the sparse option, or is too small: , .
- Notes
dim1_parab_remesh_fd
integrates the system of parabolic-elliptic equations and coupled ODEswhere (1) defines the PDE part and (2) generalizes the coupled ODE part of the problem.
In (1), and depend on , , , , and ; depends on , , , , and linearly on . The vector is the set of PDE solution values
and the vector is the partial derivative with respect to . The vector is the set of ODE solution values
and denotes its derivative with respect to time.
In (2), represents a vector of spatial coupling points at which the ODEs are coupled to the PDEs. These points may or may not be equal to some of the PDE spatial mesh points. , , , and are the functions , , , and evaluated at these coupling points. Each may only depend linearly on time derivatives. Hence the equation (2) may be written more precisely as
where , is a vector of length , is an by matrix, is an by matrix and the entries in , and may depend on , , , and . In practice you only need to supply a vector of information to define the ODEs and not the matrices and . (See Parameters for the specification of .)
The integration in time is from to , over the space interval , where and are the leftmost and rightmost points of a mesh defined initially by you and (possibly) adapted automatically during the integration according to user-specified criteria. The coordinate system in space is defined by the following values of ; for Cartesian coordinates, for cylindrical polar coordinates and for spherical polar coordinates.
The PDE system which is defined by the functions , and must be specified in .
The initial values of the functions and must be specified in . Note that will be called again following any initial remeshing, and so should be specified for all values of in the interval , and not just the initial mesh points.
The functions which may be thought of as fluxes, are also used in the definition of the boundary conditions. The boundary conditions must have the form
where or .
The boundary conditions must be specified in