org.apache.commons.math3.ode

## Class JacobianMatrices

- java.lang.Object
- - org.apache.commons.math3.ode.JacobianMatrices

-     public class JacobianMatrices
      extends Object

  This class defines a set of `secondary equations` to compute the Jacobian matrices with respect to the initial state vector and, if any, to some parameters of the primary ODE set.

  It is intended to be packed into an `ExpandableStatefulODE` in conjunction with a primary set of ODE, which may be:

  - a `FirstOrderDifferentialEquations`
  - a `MainStateJacobianProvider`
  In order to compute Jacobian matrices with respect to some parameters of the primary ODE set, the following parameter Jacobian providers may be set:
  - a `ParameterJacobianProvider`
  - a `ParameterizedODE`
  Since:
    3.0
  Version:
    $Id: JacobianMatrices.java 1538354 2013-11-03 12:48:40Z tn $
  See Also:
    `ExpandableStatefulODE`, `FirstOrderDifferentialEquations`, `MainStateJacobianProvider`, `ParameterJacobianProvider`, `ParameterizedODE`

- - ### Nested Class Summary

    Nested Classes
    Modifier and Type | Class and Description
    --- | ---
    `static class` | `JacobianMatrices.MismatchedEquations` Special exception for equations mismatch.

  - ### Constructor Summary

    Constructors
    Constructor and Description
    `JacobianMatrices(FirstOrderDifferentialEquations fode, double[] hY, String... parameters)` Simple constructor for a secondary equations set computing Jacobian matrices.
    `JacobianMatrices(MainStateJacobianProvider jode, String... parameters)` Simple constructor for a secondary equations set computing Jacobian matrices.

  - ### Method Summary

    Methods
    Modifier and Type | Method and Description
    --- | ---
    `void` | `addParameterJacobianProvider(ParameterJacobianProvider provider)` Add a parameter Jacobian provider.
    `void` | `getCurrentMainSetJacobian(double[][] dYdY0)` Get the current value of the Jacobian matrix with respect to state.
    `void` | `getCurrentParameterJacobian(String pName, double[] dYdP)` Get the current value of the Jacobian matrix with respect to one parameter.
    `void` | `registerVariationalEquations(ExpandableStatefulODE expandable)` Register the variational equations for the Jacobians matrices to the expandable set.
    `void` | `setInitialMainStateJacobian(double[][] dYdY0)` Set the initial value of the Jacobian matrix with respect to state.
    `void` | `setInitialParameterJacobian(String pName, double[] dYdP)` Set the initial value of a column of the Jacobian matrix with respect to one parameter.
    `void` | `setParameterizedODE(ParameterizedODE parameterizedOde)` Set a parameter Jacobian provider.
    `void` | `setParameterStep(String parameter, double hP)` Set the step associated to a parameter in order to compute by finite difference the Jacobian matrix.

    - ### Methods inherited from class java.lang.Object

      `clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait`

- - ### Constructor Detail

    - #### JacobianMatrices

          public JacobianMatrices(FirstOrderDifferentialEquations fode,
                          double[] hY,
                          String... parameters)
                           throws DimensionMismatchException

      Simple constructor for a secondary equations set computing Jacobian matrices.

      Parameters must belong to the supported ones given by `Parameterizable.getParametersNames()`, so the primary set of differential equations must be `Parameterizable`.

      Note that each selection clears the previous selected parameters.

      Parameters:
        `fode` - the primary first order differential equations set to extend
        `hY` - step used for finite difference computation with respect to state vector
        `parameters` - parameters to consider for Jacobian matrices processing (may be null if parameters Jacobians is not desired)
      Throws:
        `DimensionMismatchException` - if there is a dimension mismatch between the steps array `hY` and the equation dimension

    - #### JacobianMatrices

          public JacobianMatrices(MainStateJacobianProvider jode,
                          String... parameters)

      Simple constructor for a secondary equations set computing Jacobian matrices.

      Parameters must belong to the supported ones given by `Parameterizable.getParametersNames()`, so the primary set of differential equations must be `Parameterizable`.

      Note that each selection clears the previous selected parameters.

      Parameters:
        `jode` - the primary first order differential equations set to extend
        `parameters` - parameters to consider for Jacobian matrices processing (may be null if parameters Jacobians is not desired)

  - ### Method Detail

    - #### registerVariationalEquations

          public void registerVariationalEquations(ExpandableStatefulODE expandable)
                                            throws DimensionMismatchException,
                                                   JacobianMatrices.MismatchedEquations

      Register the variational equations for the Jacobians matrices to the expandable set.
      Parameters:
        `expandable` - expandable set into which variational equations should be registered
      Throws:
        `DimensionMismatchException` - if the dimension of the partial state does not match the selected equations set dimension
        `JacobianMatrices.MismatchedEquations` - if the primary set of the expandable set does not match the one used to build the instance
      See Also:
        `ExpandableStatefulODE.addSecondaryEquations(SecondaryEquations)`

    - #### addParameterJacobianProvider

          public void addParameterJacobianProvider(ParameterJacobianProvider provider)

      Add a parameter Jacobian provider.
      Parameters:
        `provider` - the parameter Jacobian provider to compute exactly the parameter Jacobian matrix

    - #### setParameterizedODE

          public void setParameterizedODE(ParameterizedODE parameterizedOde)

      Set a parameter Jacobian provider.
      Parameters:
        `parameterizedOde` - the parameterized ODE to compute the parameter Jacobian matrix using finite differences

    - #### setParameterStep

          public void setParameterStep(String parameter,
                              double hP)
                                throws UnknownParameterException

      Set the step associated to a parameter in order to compute by finite difference the Jacobian matrix.

      Needed if and only if the primary ODE set is a `ParameterizedODE`.

      Given a non zero parameter value pval for the parameter, a reasonable value for such a step is `pval * FastMath.sqrt(Precision.EPSILON)`.

      A zero value for such a step doesn't enable to compute the parameter Jacobian matrix.

      Parameters:
        `parameter` - parameter to consider for Jacobian processing
        `hP` - step for Jacobian finite difference computation w.r.t. the specified parameter
      Throws:
        `UnknownParameterException` - if the parameter is not supported
      See Also:
        `ParameterizedODE`

    - #### setInitialMainStateJacobian

          public void setInitialMainStateJacobian(double[][] dYdY0)
                                           throws DimensionMismatchException

      Set the initial value of the Jacobian matrix with respect to state.

      If this method is not called, the initial value of the Jacobian matrix with respect to state is set to identity.

      Parameters:
        `dYdY0` - initial Jacobian matrix w.r.t. state
      Throws:
        `DimensionMismatchException` - if matrix dimensions are incorrect

    - #### setInitialParameterJacobian

          public void setInitialParameterJacobian(String pName,
                                         double[] dYdP)
                                           throws UnknownParameterException,
                                                  DimensionMismatchException

      Set the initial value of a column of the Jacobian matrix with respect to one parameter.

      If this method is not called for some parameter, the initial value of the column of the Jacobian matrix with respect to this parameter is set to zero.

      Parameters:
        `pName` - parameter name
        `dYdP` - initial Jacobian column vector with respect to the parameter
      Throws:
        `UnknownParameterException` - if a parameter is not supported
        `DimensionMismatchException` - if the column vector does not match state dimension

    - #### getCurrentMainSetJacobian

          public void getCurrentMainSetJacobian(double[][] dYdY0)

      Get the current value of the Jacobian matrix with respect to state.
      Parameters:
        `dYdY0` - current Jacobian matrix with respect to state.

    - #### getCurrentParameterJacobian

          public void getCurrentParameterJacobian(String pName,
                                         double[] dYdP)

      Get the current value of the Jacobian matrix with respect to one parameter.
      Parameters:
        `pName` - name of the parameter for the computed Jacobian matrix
        `dYdP` - current Jacobian matrix with respect to the named parameter

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