Vole_all.cpp File Reference

This file contains the code for all vole lifestage classes
More...

#include <iostream>
#include <fstream>
#include "../Landscape/ls.h"
#include "../BatchALMaSS/PopulationManager.h"
#include "../BatchALMaSS/BinaryMapBase.h"
#include "../BatchALMaSS/MovementMap.h"
#include "../Vole/vole_all.h"
#include "../Vole/VolePopulationManager.h"
#include "../Vole/GeneticMaterial.h"
#include "../Vole/Predators.h"
#include "../Vole/Vole_toletoc.h"

Macros
#define	_CRT_SECURE_NO_DEPRECATE

Variables
CfgBool	cfg_RecordVoleMort
CfgFloat	l_pest_daily_mort
	Daily mortality of pesticide with type 1. More...
CfgFloat	cfg_extradispmort ("VOLEDISPMORT", CFG_CUSTOM, 0.055)
	Input parameter for daily extra mortality chance while dispersing. More...
CfgFloat	cfg_VoleResourceRegrowth ("VOLE_RESOURCEREGROWTH", CFG_CUSTOM, 0.5)
	A parameter determining the density dependence effect. Zero will have no density dependence effect, 1.0 will have infinite impact. More...
static CfgFloat	cfg_volepcidebiodegredrate ("VOLE_PCIDE_BIODEGREDATIONRATE", CFG_CUSTOM, 0.0)
static CfgFloat	cfg_InfanticideRangeRelToTerRange ("VOLE_IINFANTICIDERANGE_RELTO_TERRANGE", CFG_CUSTOM, 0.5)
static CfgBool	cfg_VoleMortalityDataUsed ("VOLE_MORTALITY_DATA_USED", CFG_CUSTOM, false)
static CfgInt	cfg_VoleEndoCrineDisruptionGestationLength ("VOLE_ENDOCRINEDISPRUPTORGESTATION", CFG_CUSTOM, 21)
static CfgFloat	cfg_InfanticideProbability ("INFANTI_PROBA", CFG_CUSTOM, 0.01)
static CfgFloat	cfg_vole_habqualscaler ("VOLE_HABQUALSCALER", CFG_CUSTOM, 2.1)
CfgInt	cfg_MinFemaleTerritorySize ("VOLE_MINFEMALETERRITORYSIZE", CFG_CUSTOM, 8)
static CfgInt	cfg_MaxFemaleTerrSize ("VOLE_MAXFEMALETERRITORYSIZE", CFG_CUSTOM, 8)
CfgInt	cfg_MinMaleTerritorySize ("VOLE_MINMALETERRITORYSIZE", CFG_CUSTOM, 9)
static CfgInt	cfg_MaxMaleTerrSize ("VOLE_MAXMALETERRITORYSIZE", CFG_CUSTOM, 23)
static CfgInt	cfg_vole_LifeMonths ("VOLE_LIFEMONTHS", CFG_CUSTOM, 3)
static CfgInt	cfg_MaxStarvationDays ("VOLE_MAXSTARVATIONDAYS", CFG_CUSTOM, 29)
double	MoveToLessFavourable
double	g_speedy_Divides [2001]
	A generally useful array of fast divide calculators by multiplication. More...
CfgInt	cfg_productapplicstartyear
static CfgFloat	cfg_PesticideAccumulationThreshold ("VOLE_PESTICDEACCUMULATIONTHRESHOLD", CFG_CUSTOM, 20.0)
static CfgFloat	cfg_PesticideAccumulationThresholdModelink2 ("VOLE_PESTICDEACCUMULATIONTHRESHOLD_MODELINKTWO", CFG_CUSTOM, 20.0)
static CfgFloat	cfg_PesticideAccumulationThreshold2 ("VOLE_PESTICDEACCUMULATIONTHRESHOLDTWO", CFG_CUSTOM, 44.1)
static CfgFloat	cfg_PesticideFemaleMaturityDelay ("VOLE_PCIDE_FEMALEMATURITYDELAY", CFG_CUSTOM, 0.0192)
static CfgFloat	cfg_PesticideLitterSizeReduction ("VOLE_PCIDE_LITTERSIZEREDUCTION", CFG_CUSTOM, 0.0038)
static CfgFloat	cfg_PesticideWeaningReduction ("VOLE_PCIDE_WEANINGREDUCTION", CFG_CUSTOM, 0.0017)
CfgBool	cfg_ResistanceDominant ("VOLE_RESISTANCEDOMINANT", CFG_CUSTOM, false)
CfgInt	cfg_productapplicendyear
CfgBool	cfg_ReallyBigOutputMonthly_used
CfgBool	cfg_CfgRipleysOutputUsed
CfgBool	cfg_AorOutput_used
CfgBool	l_pest_enable_pesticide_engine
	Used to turn on or off the PPP functionality of ALMaSS. More...
CfgBool	cfg_pest_residue_or_rate
	Use residue or rate. Used in Vole code. More...
CfgInt	cfg_VoleDDepConst ("VOLE_DDEPCONST", CFG_CUSTOM, 4)
CfgInt	cfg_MinReproAgeM ("VOLE_MINREPROAGEM", CFG_CUSTOM, 30)
CfgInt	cfg_MinReproAgeF ("VOLE_MINREPROAGEF", CFG_CUSTOM, 23)
const int	FemNoMature = September
const unsigned	TheGestationPeriod = 21
const unsigned	WeanedAge = 13
const int	WeanedWeight = 5
const double	MaxWeightM = 60
const double	MaxWeightF = 55
const double	DaysAtMaxGrowth = 90.0
const double	growthperdayM = (MaxWeightM - WeanedWeight) / DaysAtMaxGrowth
const double	growthperdayF = (MaxWeightF - WeanedWeight) / DaysAtMaxGrowth
const int	GrowStopDate = August
int	MinReproAgeM
int	MinReproAgeF
const unsigned	MinReproWeightM = 40
const int	MinReproWeightF = 20
int	g_sigAgeDiff = 30
const double	FemaleResourceReq [13]
const unsigned	FemaleMovement = 50
const unsigned	MinFemaleMovement = 5
const unsigned	VoleMoveInterval = 30
const unsigned	MaleMovement [4] = {10, 40, 70, 110}
const unsigned	MinMaleMovement = 5
int	g_MaleReproductFinish = 0
const double	InfanticideChanceByAge [9] = {0.97, 0.86, 0.75, 0.64, 0.54, 0.43, 0.32, 0.21, 0.11}
double	g_DailyMortChance = 0.003
double	g_DailyMortChanceMaleTerr = 0.003
const double	VoleHarvestMort = 0.20
const double	VoleStriglingMort = 0.50
const double	VoleSoilCultivationMort = 0.75
const double	VolePigGrazingMort = 0.25
const double	VoleHerbicicideMort = 0.0
const double	VoleInsecticideMort = 0.0
double	g_extradispmort
double	g_NoFemalesMove = 0.01

Detailed Description

This file contains the code for all vole lifestage classes

by Chris J. Topping
Version of 28th Jan 2001

With additions as noted in:
April 2006
November 2007
Doxygen formatted comments in May 2008

Macro Definition Documentation

_CRT_SECURE_NO_DEPRECATE

#define _CRT_SECURE_NO_DEPRECATE

Variable Documentation

cfg_AorOutput_used

CfgBool cfg_AorOutput_used

cfg_CfgRipleysOutputUsed

CfgBool cfg_CfgRipleysOutputUsed

cfg_extradispmort

CfgFloat cfg_extradispmort("VOLEDISPMORT", CFG_CUSTOM, 0.055)

Input parameter for daily extra mortality chance while dispersing.

Extra mortality for dispersing individuals

Referenced by Vole_Population_Manager::DoFirst(), and Vole_Population_Manager::Init().

cfg_InfanticideProbability

CfgFloat cfg_InfanticideProbability("INFANTI_PROBA", CFG_CUSTOM, 0.01)

static

Referenced by Vole_Male::st_Infanticide().

cfg_InfanticideRangeRelToTerRange

CfgFloat cfg_InfanticideRangeRelToTerRange("VOLE_IINFANTICIDERANGE_RELTO_TERRANGE", CFG_CUSTOM, 0.5)

static

cfg_MaxFemaleTerrSize

CfgInt cfg_MaxFemaleTerrSize("VOLE_MAXFEMALETERRITORYSIZE", CFG_CUSTOM, 8)

static

Maximum territory size for females

Referenced by Vole_Base::Init().

cfg_MaxMaleTerrSize

CfgInt cfg_MaxMaleTerrSize("VOLE_MAXMALETERRITORYSIZE", CFG_CUSTOM, 23)

static

Maximum territory size for males

Referenced by Vole_Base::Init().

cfg_MaxStarvationDays

CfgInt cfg_MaxStarvationDays("VOLE_MAXSTARVATIONDAYS", CFG_CUSTOM, 29)

static

The max number of starvation days before death

Referenced by Vole_Base::Init().

cfg_MinFemaleTerritorySize

CfgInt cfg_MinFemaleTerritorySize("VOLE_MINFEMALETERRITORYSIZE", CFG_CUSTOM, 8)

Minimum territory size for females

Referenced by Vole_Base::Init().

cfg_MinMaleTerritorySize

CfgInt cfg_MinMaleTerritorySize("VOLE_MINMALETERRITORYSIZE", CFG_CUSTOM, 9)

Minimum territory size for males

Referenced by Vole_Base::Init().

cfg_MinReproAgeF

CfgInt cfg_MinReproAgeF("VOLE_MINREPROAGEF", CFG_CUSTOM, 23)

Referenced by Vole_Population_Manager::Init().

cfg_MinReproAgeM

CfgInt cfg_MinReproAgeM("VOLE_MINREPROAGEM", CFG_CUSTOM, 30)

Referenced by Vole_Population_Manager::Init().

cfg_pest_residue_or_rate

CfgBool cfg_pest_residue_or_rate

Use residue or rate. Used in Vole code.

cfg_PesticideAccumulationThreshold

CfgFloat cfg_PesticideAccumulationThreshold("VOLE_PESTICDEACCUMULATIONTHRESHOLD", CFG_CUSTOM, 20.0)

static

Toxicological variable for specific pesticide effects

Referenced by Vole_Female::st_GiveBirth(), and Vole_Female::st_Lactating().

cfg_PesticideAccumulationThreshold2

CfgFloat cfg_PesticideAccumulationThreshold2("VOLE_PESTICDEACCUMULATIONTHRESHOLDTWO", CFG_CUSTOM, 44.1)

static

cfg_PesticideAccumulationThresholdModelink2

CfgFloat cfg_PesticideAccumulationThresholdModelink2("VOLE_PESTICDEACCUMULATIONTHRESHOLD_MODELINKTWO", CFG_CUSTOM, 20.0)

static

Referenced by Vole_Female::st_GiveBirth(), and Vole_Female::st_Lactating().

cfg_PesticideFemaleMaturityDelay

CfgFloat cfg_PesticideFemaleMaturityDelay("VOLE_PCIDE_FEMALEMATURITYDELAY", CFG_CUSTOM, 0.0192)

static

Referenced by Vole_Female::st_Lactating().

cfg_PesticideLitterSizeReduction

CfgFloat cfg_PesticideLitterSizeReduction("VOLE_PCIDE_LITTERSIZEREDUCTION", CFG_CUSTOM, 0.0038)

static

Referenced by Vole_Female::st_GiveBirth().

cfg_PesticideWeaningReduction

CfgFloat cfg_PesticideWeaningReduction("VOLE_PCIDE_WEANINGREDUCTION", CFG_CUSTOM, 0.0017)

static

Referenced by Vole_Female::st_Lactating().

cfg_productapplicendyear

CfgInt cfg_productapplicendyear

Referenced by Landscape::Tick().

cfg_productapplicstartyear

CfgInt cfg_productapplicstartyear

Toxicological variable for specific pesticide effects

Referenced by Landscape::Tick().

cfg_ReallyBigOutputMonthly_used

CfgBool cfg_ReallyBigOutputMonthly_used

cfg_RecordVoleMort

CfgBool cfg_RecordVoleMort

Referenced by Vole_JuvenileMale::BeginStep(), Vole_JuvenileFemale::BeginStep(), Vole_JuvenileMale::Dispersal(), Vole_Male::Dispersal(), Vole_JuvenileFemale::Dispersal(), Vole_Population_Manager::DoFirst(), Vole_Male::EndStep(), Vole_JuvenileFemale::EndStep(), Vole_Population_Manager::Init(), Vole_JuvenileMale::OnFarmEvent(), Vole_JuvenileFemale::OnFarmEvent(), Vole_JuvenileMale::OnKilled(), Vole_JuvenileFemale::OnKilled(), Vole_JuvenileFemale::Step(), Vole_Female::Step(), and Vole_Population_Manager::~Vole_Population_Manager().

cfg_ResistanceDominant

CfgBool cfg_ResistanceDominant("VOLE_RESISTANCEDOMINANT", CFG_CUSTOM, false)

Referenced by Vole_Population_Manager::ResistanceOutput().

cfg_vole_habqualscaler

CfgFloat cfg_vole_habqualscaler("VOLE_HABQUALSCALER", CFG_CUSTOM, 2.1)

static

Scales to the average minimum territory quality acceptable

Referenced by Vole_Base::Init().

cfg_vole_LifeMonths

CfgInt cfg_vole_LifeMonths("VOLE_LIFEMONTHS", CFG_CUSTOM, 3)

static

Average physiological ifespan in months above 1 yr

Referenced by Vole_Base::Init().

cfg_VoleDDepConst

CfgInt cfg_VoleDDepConst("VOLE_DDEPCONST", CFG_CUSTOM, 4)

Minimum territory size for males from Erlinge et al 1990

Referenced by Vole_Male::CanFeed(), Vole_JuvenileMale::Dispersal(), Vole_Male::Dispersal(), Vole_JuvenileFemale::Dispersal(), Vole_JuvenileMale::st_Eval_n_Explore(), Vole_JuvenileFemale::st_Evaluate_n_Explore(), Vole_Female::st_Evaluate_n_Explore(), and Vole_Female::st_Special_Explore().

cfg_VoleEndoCrineDisruptionGestationLength

CfgInt cfg_VoleEndoCrineDisruptionGestationLength("VOLE_ENDOCRINEDISPRUPTORGESTATION", CFG_CUSTOM, 21)

static

Referenced by Vole_Female::ReInit(), and Vole_Female::Vole_Female().

cfg_VoleMortalityDataUsed

CfgBool cfg_VoleMortalityDataUsed("VOLE_MORTALITY_DATA_USED", CFG_CUSTOM, false)

static

cfg_volepcidebiodegredrate

CfgFloat cfg_volepcidebiodegredrate("VOLE_PCIDE_BIODEGREDATIONRATE", CFG_CUSTOM, 0.0)

static

Referenced by Vole_Base::Init().

cfg_VoleResourceRegrowth

CfgFloat cfg_VoleResourceRegrowth("VOLE_RESOURCEREGROWTH", CFG_CUSTOM, 0.5)

A parameter determining the density dependence effect. Zero will have no density dependence effect, 1.0 will have infinite impact.

DaysAtMaxGrowth

const double DaysAtMaxGrowth = 90.0

How long it takes to get to max weight at max rate of growth

FemaleMovement

const unsigned FemaleMovement = 50

Max distance between fix distance in Mols radiotracking data was 48m

Referenced by Vole_JuvenileFemale::st_Evaluate_n_Explore(), Vole_Female::st_Evaluate_n_Explore(), and Vole_Female::st_Special_Explore().

FemaleResourceReq

const double FemaleResourceReq[13]

Initial value:

=
{
    0,
    1.0,
    1.0,
    1.0,
    1.0,
    1.0,
    1.0,
    1.0,
    1.0,
    1.0,
    1.0,
    1.0,
    1.0
}

This is only here in case the resource requirement ought to change per month - it is not currently used.
Need 13 below because SupplyMonth() returns 1-12

FemNoMature

const int FemNoMature = September

1st september female voles cannot mature after this

g_DailyMortChance

double g_DailyMortChance = 0.003

Mortality per day as a background mortality encompassing all things not directly modelled. This may include specialist predators if they are not simulated - if they are then reduce this value

Referenced by Vole_Population_Manager::DoFirst(), Vole_Population_Manager::Init(), Vole_Base::MortalityTest(), and Vole_Male::MortalityTest().

g_DailyMortChanceMaleTerr

double g_DailyMortChanceMaleTerr = 0.003

Referenced by Vole_Population_Manager::DoFirst(), and Vole_Male::MortalityTest().

g_extradispmort

double g_extradispmort

Referenced by Vole_JuvenileMale::Dispersal(), Vole_Male::Dispersal(), Vole_JuvenileFemale::Dispersal(), Vole_Population_Manager::DoFirst(), and Vole_Population_Manager::Init().

g_MaleReproductFinish

int g_MaleReproductFinish = 0

1/10 deduced from Erlinge et al, 1983

Referenced by Vole_Population_Manager::DoFirst(), and Vole_Population_Manager::Init().

g_NoFemalesMove

double g_NoFemalesMove = 0.01

Referenced by Vole_Population_Manager::Init(), Vole_JuvenileMale::st_Eval_n_Explore(), and Vole_Male::st_Eval_n_Explore().

g_sigAgeDiff

int g_sigAgeDiff = 30

Age difference required before eviction by older male

Referenced by Vole_Population_Manager::Init(), and Vole_Population_Manager::SupplyInOlderTerr().

g_speedy_Divides

double g_speedy_Divides[2001]

A generally useful array of fast divide calculators by multiplication.

array of reciprocals to use instead of divding

Referenced by Landscape::Landscape().

GrowStopDate

const int GrowStopDate = August

The day it is assumed that grass stops growing

growthperdayF

const double growthperdayF = (MaxWeightF - WeanedWeight) / DaysAtMaxGrowth

g per day during growing for females

Referenced by Vole_JuvenileFemale::EndStep().

growthperdayM

const double growthperdayM = (MaxWeightM - WeanedWeight) / DaysAtMaxGrowth

g per day during growing for males

Referenced by Vole_JuvenileMale::EndStep(), and Vole_Male::EndStep().

InfanticideChanceByAge

const double InfanticideChanceByAge[9] = {0.97, 0.86, 0.75, 0.64, 0.54, 0.43, 0.32, 0.21, 0.11}

Data from M.arvalis (Heise & Lippke 1997) on infanticide attempts success rate with age of litter

Referenced by Vole_Female::OnInfanticideAttempt().

l_pest_daily_mort

CfgFloat l_pest_daily_mort

Daily mortality of pesticide with type 1.

l_pest_enable_pesticide_engine

CfgBool l_pest_enable_pesticide_engine

Used to turn on or off the PPP functionality of ALMaSS.

Referenced by Pesticide::DecreaseVegetationPesticide(), Pesticide::Pesticide(), Pesticide::ReducePlantPesticide(), Pesticide::RemovePlantPesticide(), and Pesticide::Tick().

MaleMovement

const unsigned MaleMovement[4] = {10, 40, 70, 110}

Max distance between fix distance in Mols radiotracking data was 110m. For the male the distance that he can move increases with size

Referenced by Vole_JuvenileMale::st_Eval_n_Explore(), and Vole_Male::st_Eval_n_Explore().

MaxWeightF

const double MaxWeightF = 55

The maximum weight of adult females

Referenced by Vole_JuvenileFemale::EndStep(), and Vole_Base::Init().

MaxWeightM

const double MaxWeightM = 60

The maximum weight of adult males

Referenced by Vole_Male::EndStep(), and Vole_Base::Init().

MinFemaleMovement

const unsigned MinFemaleMovement = 5

arbitrary minimum movement of 5 - because we need one

Referenced by Vole_Female::st_Evaluate_n_Explore(), and Vole_Female::st_Special_Explore().

MinMaleMovement

const unsigned MinMaleMovement = 5

arbitrary minimum movement of 5 - because we need one

Referenced by Vole_JuvenileMale::st_JuvenileExplore().

MinReproAgeF

int MinReproAgeF

The youngest a female can be reproductive at.

Referenced by Vole_Population_Manager::Init(), Vole_Female::ReInit(), Vole_Female::st_BecomeReproductive(), Vole_JuvenileFemale::Step(), and Vole_Female::Vole_Female().

MinReproAgeM

int MinReproAgeM

The youngest a male can be reproductive at.

Referenced by Vole_JuvenileMale::EndStep(), and Vole_Population_Manager::Init().

MinReproWeightF

const int MinReproWeightF = 20

The smallest a female can be reproductive at.

Referenced by Vole_JuvenileFemale::EndStep(), and Vole_Base::Init().

MinReproWeightM

const unsigned MinReproWeightM = 40

The smallest a male can be reproductive at.

Referenced by Vole_Male::DetermineTerritorySize(), and Vole_Base::Init().

MoveToLessFavourable

double MoveToLessFavourable

This is specified as a global because it avoids costing time on look-ups.
This is needed because of the extreme CPU intensive movement functions

Referenced by Vole_Base::DoWalking(), Vole_Base::DoWalkingCorrect(), and Vole_Population_Manager::Init().

TheGestationPeriod

const unsigned TheGestationPeriod = 21

Probability of maturing in each month of age - will do this if 5 months old unless it is winter 21 days gestation

Referenced by Vole_Female::st_Mating().

VoleHarvestMort

const double VoleHarvestMort = 0.20

Farm operation Mortality

Referenced by Vole_JuvenileMale::OnFarmEvent(), and Vole_JuvenileFemale::OnFarmEvent().

VoleHerbicicideMort

const double VoleHerbicicideMort = 0.0

Vole herbicide diect mortality

Referenced by Vole_JuvenileMale::OnFarmEvent(), and Vole_JuvenileFemale::OnFarmEvent().

VoleInsecticideMort

const double VoleInsecticideMort = 0.0

Vole insecticide diect mortality

Referenced by Vole_JuvenileMale::OnFarmEvent(), and Vole_JuvenileFemale::OnFarmEvent().

VoleMoveInterval

const unsigned VoleMoveInterval = 30

VolePigGrazingMort

const double VolePigGrazingMort = 0.25

Farm operation Mortality

Referenced by Vole_JuvenileMale::OnFarmEvent(), and Vole_JuvenileFemale::OnFarmEvent().

VoleSoilCultivationMort

const double VoleSoilCultivationMort = 0.75

Farm operation Mortality

Referenced by Vole_JuvenileMale::OnFarmEvent(), and Vole_JuvenileFemale::OnFarmEvent().

VoleStriglingMort

const double VoleStriglingMort = 0.50

Farm operation Mortality

Referenced by Vole_JuvenileMale::OnFarmEvent(), and Vole_JuvenileFemale::OnFarmEvent().

WeanedAge

const unsigned WeanedAge = 13

Age at weaning

Referenced by Vole_Female::st_Lactating().

WeanedWeight

const int WeanedWeight = 5

Referenced by Vole_JuvenileMale::ReInit(), Vole_JuvenileFemale::ReInit(), Vole_Female::ReInit(), Vole_Female::Vole_Female(), Vole_JuvenileFemale::Vole_JuvenileFemale(), and Vole_JuvenileMale::Vole_JuvenileMale().