Senescence - Version 1.0. More...

#include <SenescenceMort.h>

Inheritance diagram for clSenescenceMort:

Public Member Functions
	clSenescenceMort (clSimManager *p_oSimManager)
	Constructor. More...

	~clSenescenceMort ()
	Destructor. More...

void	DoShellSetup (xercesc::DOMDocument *p_oDoc)
	Reads in values from the parameter file. More...

deadCode	DoMort (clTree *p_oTree, const float &fDiam, const short int &iSpecies)
	Calculates mortality according to senescence. More...

Public Member Functions inherited from clMortalityBase
	clMortalityBase (clSimManager *p_oSimManager)
	Constructor. More...

virtual	~clMortalityBase ()
	Destructor. More...

void	Action ()
	Performs mortality calculations. More...

clMortalityOrg *	GetMortOrg ()
	Gets the mortality org object. More...

void	RegisterTreeDataMembers ()
	Triggers the mortality data member registrations. More...

short int	GetNewTreeInts ()
	Overridden from clBehaviorBase. More...

bool	UsesThisMortality (short int iSp, short int iTp)
	Whether or not a species/type combo uses this mortality object. More...

virtual void	PreMortCalcs (clTreePopulation *p_oPop)
	Performs calculations before any trees have been killed. More...

Public Member Functions inherited from clBehaviorBase
virtual float	GetBehaviorVersion ()
	Gets the behavior version number. More...

	clBehaviorBase (clSimManager *p_oSimManager)
	Constructor. More...

virtual	~clBehaviorBase ()
	Destructor. More...

virtual short int	ValidateVersionNumber (float fTestVersion)
	Makes sure that the version number of a file passed is between the minimum and current version numbers. More...

virtual void	SetSpeciesTypeCombos (short int iNumCombos, stcSpeciesTypeCombo *p_whatCombos)
	Sets the species/type combos for a behavior. More...

virtual void	SetNameData (std::string sNameString)
	Sets the string for the parameter file behavior. More...

virtual short int	GetNewTreeFloats ()
	Gets the number of new tree float data members this behavior wants to register. More...

virtual short int	GetNewTreeChars ()
	Gets the number of new tree character data members this behavior wants to register. More...

virtual short int	GetNewTreeBools ()
	Gets the number of new tree bool data members this behavior wants to register. More...

virtual short int	GetNumSpeciesTypeCombos ()
	Gets the number of species/type combos to which this behavior applies. More...

virtual short int	GetNumBehaviorSpecies ()
	Gets the number of unique tree species to which this behavior applies. More...

struct stcSpeciesTypeCombo	GetSpeciesTypeCombo (short int iIndex)
	Gets one of this behavior's type/species combos. More...

virtual short int	GetBehaviorSpecies (short int iIndex)
	Gets one of the behavior's species. More...

short int	GetBehaviorListNumber ()
	Gets the behavior list number for this behavior, which differentiates between multiple copies of the behavior in the behavior list. More...

void	SetBehaviorListNumber (short int iNumber)
	Sets the behavior list number for this behavior, which differentiates between multiple copies of the behavior in the behavior list. More...

std::string	FormatSpeciesTypeQueryString ()
	Formats the string for species/types query. More...

virtual DOMElement *	GetParentParametersElement (xercesc::DOMDocument *p_oDoc)
	This will get the correct set of parameters for this behavior based on the behavior list position number. More...

Public Member Functions inherited from clWorkerBase
	clWorkerBase (clSimManager *p_oSimManager)
	Constructor. More...

virtual	~clWorkerBase ()
	Destructor. More...

std::string	GetName ()
	Gets the object's namestring. More...

clSimManager *	GetSimManager ()

void	DoObjectSetup (xercesc::DOMDocument *p_oDoc, fileType iFileType)
	Triggers the setup process. More...

virtual void	TimestepCleanup ()
	Performs any necessary cleanup operations at the end of a timestep. More...

virtual void	EndOfRunCleanup ()
	Performs any necessary cleanup operations at the end of a run. More...

Protected Member Functions
void	CalculateMortalityProbability ()
	Calculates mortality probability for a given dbh out to the maximum. More...

Protected Member Functions inherited from clMortalityBase
void	GetData (xercesc::DOMDocument *p_oDoc)
	Triggers all mortality setup. More...

void	PopulateUsesThisMortality ()
	Declares and populates the mp_bUsesThisMortality array. More...

Protected Member Functions inherited from clWorkerBase
void	AssembleFileCode (int iFileType, int iFileVersion, char *cCode)
	Creates the proper identifying filecode for an XML file. More...

Protected Attributes
doubleVal *	mp_fRandomAlpha
	Random mortality alpha, for calculating annual probability of death. More...

doubleVal *	mp_fRandomBeta
	Random mortality beta, for calculating annual probability of death. More...

doubleVal *	mp_fDbhAtOnset
	DBH at onset of senescence. More...

float **	mp_fMortProb
	Probability of death per timestep for each DBH value out to the maximum. More...

int	m_iMaxDbh
	DBH of asymptotic maximum mortality. More...

short int	m_iNumTotalSpecies
	Keep our own copy for the destructor. More...

Protected Attributes inherited from clMortalityBase
short int	m_iNumTotalSpecies
	Keep a copy for the constructor. More...

bool	m_bHooked
	Whether or not this shell object is hooked to clMortalityOrg. More...

bool **	mp_bUsesThisMortality
	2D array, species by type, of whether or not this mortality shell applies to a given species/type combo. More...

Protected Attributes inherited from clBehaviorBase
short int	m_iNumSpeciesTypeCombos
	How many type/species combos a behavior will act on. More...

short int	m_iNumBehaviorSpecies
	How many distinct species are in the combo list - important for filling species-specific values from parameter file. More...

short int *	mp_iWhatSpecies
	List of distinct species - for filling species-specific values from parameter file. More...

stcSpeciesTypeCombo *	mp_whatSpeciesTypeCombos
	Array of species/type combos that the behavior will act on. More...

short int	m_iNewTreeInts
	The number of new tree integer data members this behavior wants to add. More...

short int	m_iNewTreeFloats
	The number of new tree float data members this behavior wants to add. More...

short int	m_iNewTreeChars
	The number of new tree character data members this behavior wants to add. More...

short int	m_iNewTreeBools
	The number of new tree boolean data members this behavior wants to add. More...

short int	m_iBehaviorListNumber
	The number of this behavior in the behavior list, to differentiate between possible multiple copies of this behavior. More...

float	m_fVersionNumber
	Version number - this will be rounded to 2 digits after the decimal place. More...

std::string	m_sXMLRoot
	XML root that encloses the parameters for this behavior. More...

float	m_fMinimumVersionNumber
	Minimum version number - this behavior will run parameter data for a file marked between this number and the current version number, inclusive. More...

Protected Attributes inherited from clWorkerBase
std::string	m_sNameString
	If a behavior has registered a command line command with the sim manager, this allows it to be called. More...

clSimManager *	mp_oSimManager
	Pointer to the simulation manager object. More...

int *	mp_iAllowedFileTypes
	List of the input file types this object can handle. More...

int	m_iNumAllowedTypes
	Number of input file types this object can handle. More...

Additional Inherited Members
Static Protected Attributes inherited from clMortalityBase
static clMortalityOrg *	mp_oMortalityOrg
	clMortalityOrg object. More...

Detailed Description

Senescence - Version 1.0.

This evaluates mortality due to senescence. The senescence equation is evaluated to determine the probability of death. The probability is applied to all trees to which senescence is assigned, but in practice death rate increases due to senescence don't kick in until the DBH at onset parameter is reached. Death rates rise until the asymptotic max DBH value is reached, after which they level off and don't rise further.

This cannot be assigned to seedlings.

This class's namestring is "senescencemortshell". The parameter file name string is "senescence".

Author: Lora E. Murphy

Edit history:
--------------—
October 20, 2011 - Wiped the slate clean for SORTIE 7.0 (LEM)

Constructor & Destructor Documentation

◆ clSenescenceMort()

clSenescenceMort::clSenescenceMort ( clSimManager * p_oSimManager )

Constructor.

Parameters

p_oSimManager Sim Manager object.

◆ ~clSenescenceMort()

clSenescenceMort::~clSenescenceMort ( )

Destructor.

Member Function Documentation

◆ CalculateMortalityProbability()

void clSenescenceMort::CalculateMortalityProbability ( )

protected

Calculates mortality probability for a given dbh out to the maximum.

This probability will have the number of years per timestep already taken into account.

◆ DoMort()

deadCode clSenescenceMort::DoMort	(	clTree *	p_oTree,
		const float &	fDiam,
		const short int &	iSpecies
	)

virtual

Calculates mortality according to senescence.

Parameters

fDiam	DBH of tree being evaluated - for seedlings will be 0
p_oTree	Tree being evaluated
iSpecies	Species of the tree being evaluated

Returns: natural if the tree is to die, notdead if it lives.

Implements clMortalityBase.

◆ DoShellSetup()

void clSenescenceMort::DoShellSetup ( xercesc::DOMDocument * p_oDoc )

virtual

Reads in values from the parameter file.

Parameters

p_oDoc DOM tree of parsed input file.

Reimplemented from clMortalityBase.

Member Data Documentation

◆ m_iMaxDbh

int clSenescenceMort::m_iMaxDbh

protected

DBH of asymptotic maximum mortality.

Defaults to 100

◆ m_iNumTotalSpecies

short int clSenescenceMort::m_iNumTotalSpecies

protected

Keep our own copy for the destructor.

◆ mp_fDbhAtOnset

doubleVal* clSenescenceMort::mp_fDbhAtOnset

protected

DBH at onset of senescence.

Old parameter elderlyMort. Array size is number of species to which this behavior applies.

◆ mp_fMortProb

float** clSenescenceMort::mp_fMortProb

protected

Probability of death per timestep for each DBH value out to the maximum.

Array of total number of species by m_iMaxDbh.

◆ mp_fRandomAlpha

doubleVal* clSenescenceMort::mp_fRandomAlpha

protected

Random mortality alpha, for calculating annual probability of death.

Array size is number of species to which this behavior applies.

◆ mp_fRandomBeta

doubleVal* clSenescenceMort::mp_fRandomBeta

protected

Random mortality beta, for calculating annual probability of death.

Array size is number of species to which this behavior applies.

The documentation for this class was generated from the following file:

SenescenceMort.h

Public Member Functions

Protected Member Functions

Protected Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ clSenescenceMort()

◆ ~clSenescenceMort()

Member Function Documentation

◆ CalculateMortalityProbability()

◆ DoMort()

◆ DoShellSetup()

Member Data Documentation

◆ m_iMaxDbh

◆ m_iNumTotalSpecies

◆ mp_fDbhAtOnset

◆ mp_fMortProb

◆ mp_fRandomAlpha

◆ mp_fRandomBeta