Namespace amici

Namespaces

• Namespace amici::generic_model

• Namespace amici::hdf5

Classes

• Struct ModelDimensions

• Struct ModelState

• Struct ModelStateDerived

• Struct SimulationState

• Class AbstractModel

• Class AmiciApplication

• Class AmiException

• Class AmiVector

• Class AmiVectorArray

• Class BackwardProblem

• Class ConditionContext

• Class ContextManager

• Class CvodeException

• Class CVodeSolver

• Class ExpData

• Class FinalStateStorer

• Class ForwardProblem

• Class IDAException

• Class IDASolver

• Class IntegrationFailure

• Class IntegrationFailureB

• Class Model

• Class Model_DAE

• Class Model_ODE

• Class ModelContext

• Class NewtonFailure

• Class NewtonSolver

• Class NewtonSolverDense

• Class NewtonSolverIterative

• Class NewtonSolverSparse

• Class ReturnData

• Class SetupFailure

• Class SimulationParameters

• Class Solver

• Class SteadystateProblem

• Class SUNLinSolBand

• Class SUNLinSolDense

• Class SUNLinSolKLU

• Class SUNLinSolPCG

• Class SUNLinSolSPBCGS

• Class SUNLinSolSPFGMR

• Class SUNLinSolSPGMR

• Class SUNLinSolSPTFQMR

• Class SUNLinSolWrapper

• Class SUNMatrixWrapper

• Class SUNNonLinSolFixedPoint

• Class SUNNonLinSolNewton

• Class SUNNonLinSolWrapper

Enums

• Enum BLASLayout

• Enum BLASTranspose

• Enum FixedParameterContext

• Enum InternalSensitivityMethod

• Enum InterpolationType

• Enum LinearMultistepMethod

• Enum LinearSolver

• Enum NewtonDampingFactorMode

• Enum NonlinearSolverIteration

• Enum ParameterScaling

• Enum RDataReporting

• Enum SecondOrderMode

• Enum SensitivityMethod

• Enum SensitivityOrder

• Enum SteadyStateContext

• Enum SteadyStateSensitivityMode

• Enum SteadyStateStatus

Functions

• Function amici::amici_daxpy

• Function amici::amici_dgemm

• Function amici::amici_dgemv

• Function amici::backtraceString

• Template Function amici::checkBufferSize

• Function amici::checkFieldNames

• Function amici::checkSigmaPositivity(std::vector<realtype> const &sigmaVector, const char *vectorName)

• Function amici::checkSigmaPositivity(realtype sigma, const char *sigmaName)

• Function amici::DDspline

• Function amici::DDspline_pos

• Template Function amici::deserializeFromChar

• Template Function amici::deserializeFromString

• Function amici::dirac

• Function amici::Dmax

• Function amici::Dmin

• Function amici::Dspline

• Function amici::Dspline_pos

• Function amici::expDataFromMatlabCall

• Function amici::getNaN

• Function amici::getReturnDataMatlabFromAmiciCall

• Function amici::getScaledParameter

• Function amici::getUnscaledParameter

• Function amici::heaviside

• Function amici::initAndAttachArray

• Function amici::initMatlabDiagnosisFields

• Function amici::initMatlabReturnFields

• Function amici::isInf

• Function amici::isNaN

• Function amici::log

• Function amici::max

• Function amici::min

• Function amici::N_VGetArrayPointerConst

• Function amici::operator==(const Model &a, const Model &b)

• Function amici::operator==(const ModelDimensions &a, const ModelDimensions &b)

• Function amici::operator==(const SimulationParameters &a, const SimulationParameters &b)

• Function amici::operator==(const Solver &a, const Solver &b)

• Function amici::pos_pow

• Function amici::printErrMsgIdAndTxt

• Function amici::printfToString

• Function amici::printWarnMsgIdAndTxt

• Function amici::regexErrorToString

• Template Function amici::reorder

• Function amici::runAmiciSimulation

• Function amici::runAmiciSimulations

• Function amici::scaleParameters

• Template Function amici::serializeToChar

• Template Function amici::serializeToStdVec

• Template Function amici::serializeToString

• Function amici::setModelData

• Function amici::setSolverOptions

• Function amici::setupReturnData

• Function amici::seval

• Function amici::sign

• Function amici::sinteg

• Template Function amici::slice(std::vector<T> &data, int index, unsigned size)

• Template Function amici::slice(const std::vector<T> &data, int index, unsigned size)

• Function amici::spline

• Function amici::spline_pos

• Function amici::unscaleParameters

• Function amici::wrapErrHandlerFn

• Template Function amici::writeMatlabField0

• Template Function amici::writeMatlabField1

• Template Function amici::writeMatlabField2

• Template Function amici::writeMatlabField3

• Template Function amici::writeMatlabField4

• Template Function amici::writeSlice(const gsl::span<const T> slice, gsl::span<T> buffer)

• Template Function amici::writeSlice(const std::vector<T> &s, std::vector<T> &b)

• Template Function amici::writeSlice(const std::vector<T> &s, gsl::span<T> b)

• Function amici::writeSlice(const AmiVector &s, gsl::span<realtype> b)

Typedefs

• Typedef amici::const_N_Vector

• Typedef amici::outputFunctionType

• Typedef amici::realtype

Variables

• Variable amici::AMICI_CONV_FAILURE

• Variable amici::AMICI_DAMPING_FACTOR_ERROR

• Variable amici::AMICI_DATA_RETURN

• Variable amici::AMICI_ERR_FAILURE

• Variable amici::AMICI_ERROR

• Variable amici::AMICI_ILL_INPUT

• Variable amici::AMICI_NO_STEADY_STATE

• Variable amici::AMICI_NORMAL

• Variable amici::AMICI_NOT_IMPLEMENTED

• Variable amici::AMICI_ONE_STEP

• Variable amici::AMICI_ONEOUTPUT

• Variable amici::AMICI_PREEQUILIBRATE

• Variable amici::AMICI_RECOVERABLE_ERROR

• Variable amici::AMICI_ROOT_RETURN

• Variable amici::AMICI_SINGULAR_JACOBIAN

• Variable amici::AMICI_SUCCESS

• Variable amici::AMICI_TOO_MUCH_ACC

• Variable amici::AMICI_TOO_MUCH_WORK

• Variable amici::AMICI_UNRECOVERABLE_ERROR

• Variable amici::defaultContext

• Variable amici::pi