 |
ALMaSS
1.2 (after EcoStack, March 2024)
The Animal, Landscape and Man Simulation System
|
|
ALMaSS
1.2 (after EcoStack, March 2024)
The Animal, Landscape and Man Simulation System
|
#include <Ladybird_All.h>
Public Member Functions | |
| Ladybird_Pupae (int a_x, int a_y, Landscape *a_l_ptr, Ladybird_Population_Manager *a_bpm_ptr) | |
| Constructor method. More... | |
| void | ReInit (int a_x, int a_y, Landscape *a_l_ptr, Ladybird_Population_Manager *a_bpm_ptr) |
| Constructor method. More... | |
| TTypesOfBeetleState | St_Emerge () override |
| The method that removes the pupa and substitutes it by adult (called in the end of development) More... | |
| void | BeginStep () override |
| The standard method that is run before the Step() method. More... | |
| double | calcDailyMortChance (int a_temp2, const double a_lengthOfStageAtTemp) override |
| calculates the length of the pupal stage depending on the temperature More... | |
| TTypesOfBeetleState | St_Develop () override |
| Pupal state development. More... | |
 Public Member Functions inherited from Ladybird_Base | |
| Ladybird_Base (Ladybird_Population_Manager *a_lpm_ptr) | |
| Class constructor. More... | |
| ~Ladybird_Base () override=default | |
| Public Member Functions inherited from Beetle_Base | |
| Beetle_Base (int a_x, int a_y, Landscape *a_l_ptr, Beetle_Population_Manager *a_bpm_ptr) | |
| Beetle_Base Constructor. More... | |
| virtual void | SetState (const TTypesOfBeetleState a_state) |
| Used to force a beetle state (e.g. at start of the simulation) More... | |
| virtual void | StDie () |
| Common state Die. More... | |
| void | CopyMyself (int a_beetle) |
| For experimental purposes. More... | |
| virtual bool | GetDensityDependentMortality () |
| The density dependent mortality calculation (cannibalism) defaults to none. More... | |
| void | KillAndRemoveFromMap () |
| Kills the beetle - this version forces the beetle to re-enter the Step code and call st_Dying. More... | |
| void | IncDensity (int a_x, int a_y, int a_lifestage) |
| The method inreases the number of beetles in this specific location by one. Used when called by a beetle of different lifestage than the one incremented. More... | |
| void | DecDensity (int a_x, int a_y) |
| The method decreases the number of beetles in this specific location by one. More... | |
| void | KillOneInMap (int a_x, int a_y, int a_lifestage) |
| The method decreases the number of beetles in this specific location by one. More... | |
| void | IncDensity (const int a_x, const int a_y) |
| The method inreases the number of beetles in this specific location by one. More... | |
| void | DecDensity (const int a_x, const int a_y, const int a_lifestage) |
| The method decreases the number of beetles in this specific location by one. Used when called by a beetle of different lifestage than the one dying. More... | |
| int | GetDensity (int a_x, int a_y) const |
| The method to return the number of beetles in this specific location. More... | |
| int | GetDensityRange (int a_x, int a_y, int a_range) const |
| The method to return the number of beetles in this specific location with a range. More... | |
| int | GetDensityRangeEdge (int a_x, int a_y, int a_range) const |
| The method to return the number of beetles in this specific location with a range. More... | |
| virtual double | GetDevelopmentConstants (const int a_i) const |
| the method returns the larvae development constant to be used in day degrees calculation More... | |
| int | WhatState () override |
| Return the beetle state as an integer. More... | |
| Public Member Functions inherited from TAnimal | |
| TAnimal (int x, int y, Landscape *L) | |
| The TAnimal constructor saving the x,y, location and the landscape pointer. More... | |
| TAnimal (int x, int y) | |
| The TAnimal constructor saving the x,y used if landscape is already set. More... | |
| void | SetGuardMapIndex (int a_index_x, int a_index_y) |
| Set the guard map index, this is used to avoid two animals operating in the same location when using multithread. More... | |
| unsigned | SupplyFarmOwnerRef () const |
| Get the current location farm ref if any. More... | |
| AnimalPosition | SupplyPosition () const |
| Returns the objects location and habitat type and veg type. More... | |
| APoint | SupplyPoint () const |
| Returns the objects location in ALMaSS coordinates. More... | |
| int | SupplyPolygonRef () const |
| Returns the polygon reference where the object is located. More... | |
| TTypesOfLandscapeElement | SupplyPolygonType () const |
| Returns the polygon type where the object is located. More... | |
| int | Supply_m_Location_x () const |
| Returns the ALMaSS x-coordinate. More... | |
| int | Supply_m_Location_y () const |
| Returns the ALMaSS y-coordinate. More... | |
| int | SupplyGuardCellX () const |
| Returns the x-index to the guard cell. More... | |
| int | SupplyGuardCellY () const |
| Returns the y-index to the guard cell. More... | |
| int | SupplyAge () const |
| Returns the animals age in days. More... | |
| void | SetAge (int a_age) |
| Sets the animals age in days. More... | |
| virtual void | KillThis () |
| Sets all parameters ready for object destruction. More... | |
| virtual void | CopyMyself () |
| Used to copy the object details to another in descendent classes. More... | |
| void | SetX (const int a_x) |
| Sets the x-coordinate. More... | |
| void | SetY (const int a_y) |
| Sets the y-coordinate. More... | |
| virtual void | ReinitialiseObject (int a_x, int a_y, Landscape *a_l_ptr) |
| virtual void | ReinitialiseObject (int a_x, int a_y) |
| Used to re-use an object - must be implemented in descendent classes. More... | |
| virtual void | Dying () |
| A wrapped for KillThis - ideally should not be used. More... | |
| void | CheckManagement () |
| Used to start a check for any management related effects at the objects current location. More... | |
| void | CheckManagementXY (int a_x, int a_y) |
| Used to start a check for any management related effects at x,y. More... | |
| Public Member Functions inherited from TALMaSSObject | |
| int | GetCurrentStateNo () const |
| Returns the current state number. More... | |
| void | SetCurrentStateNo (int a_num) |
| Sets the current state number. More... | |
| bool | GetStepDone () const |
| Returns the step done indicator flag. More... | |
| void | SetStepDone (bool a_bool) |
| Sets the step done indicator flag. More... | |
| void | ReinitialiseObjectBase () |
| Used to initialise an object. More... | |
| TALMaSSObject () | |
| The constructor for TALMaSSObject. More... | |
| virtual | ~TALMaSSObject ()=default |
| The destructor for TALMaSSObject. More... | |
| Public Member Functions inherited from Beetle_Pupae | |
| Beetle_Pupae (int x, int y, Landscape *L, Beetle_Population_Manager *a_bpm_ptr) | |
| Pupae class constructor. More... | |
| void | ReInit (int a_x, int a_y, Landscape *a_l_ptr, Beetle_Population_Manager *a_bpm_ptr) override |
| ReInit for object pool. More... | |
| void | Step () override |
| Pupae Step code. More... | |
| void | EndStep () override |
| Pupae EndStep code. More... | |
| double | GetStriglingMortality () const override |
| Mortality by Strigling: similar for all forms– should use base class method. More... | |
| double | GetSoilCultivationMortality () const override |
| the method overrides the method that returns the mortality due to soil cultivation More... | |
| double | GetInsecticideApplication () const override |
| the method overrides the method that returns the mortality due to insecticide application More... | |
| double | GetHarvestMortality () const override |
| the method overrides the method that returns the mortality due to harvest More... | |
| void | InternalPesticideHandlingAndResponse () override |
| Handle pesticide events code for the beetle. More... | |
Additional Inherited Members | |
| Static Public Member Functions inherited from Ladybird_Base | |
| static void | SetLadybirdStagesNutritionalValue (const vector< int > &a_list) |
| Sets the list of aphid equivalents of each ladybird stage. More... | |
| Static Public Member Functions inherited from Beetle_Base | |
| static int | GetDensityStage (int a_x, int a_y, unsigned a_stage) |
| The method to return the number of beetles in this specific location for a given stage. More... | |
| static int | GetDensityStages (int a_x, int a_y, int a_numberstageStart, int a_numberstangeEnd) |
| The method to return the number of beetles in this specific location, summing multiple stages. More... | |
| static int | GetDensityRangeStages (int a_x, int a_y, int a_range, int a_numberstageStart, int a_numberstangeEnd) |
| The method to return the number of beetles in this specific location with a range, summing multiple stages. More... | |
| static void | SetDevelopmentConstants (const std::vector< double > &a_value) |
| Set the day degree constant. More... | |
| static void | SetTodaysTempCategory (int a_category) |
| Set the soil temperature category used for calculatiung mortality steps. More... | |
| static void | SetMoveDistribution (const string &a_type_str, const string &a_args_str) |
| Set the movement distribution. More... | |
| static void | SetBeetleSuitableForHibernation (const TTovList &a_list) |
| Set the list of tovs that are suitable for hibernation. More... | |
| static void | SetBeetleReproductionLandscape (const TToleList &a_list) |
| Set the list of toles that the beetles are allowed to reproduce upon. More... | |
| static void | SetBeetleHalfReproductionLandscape (const TToleList &a_list) |
| Set the list of toles that the beetles are allowed to reproduce upon, but that yield half of normal fertility (bembidion) More... | |
| static void | SetDipsersalDayDegrees (const int a_value) |
| static void | SetMaxShortRangeAttempts (const int a_value) |
| static void | SetDDepRange (const int a_value) |
| Set density-dependent range parameter. More... | |
| static void | SizeBeetleMap (const int a_value) |
| Size the lifestage map. More... | |
| static void | SetBeetleMap (const int a_value, SimplePositionMapInt *a_map_ptr) |
| Set lifestage map. More... | |
| static int | ChooseDirection (const double(&a_probabilities)[8]) |
| The function that draws the random number and checks in which interval in the probabilities vector are we This would be the direction the beetle will take. More... | |
| Static Public Member Functions inherited from TAnimal | |
| static void | SetSimulationWidth (int a_value) |
| Sets the simulation width. More... | |
| static void | SetSimulationHeight (int a_value) |
| Sets the simulation height. More... | |
| static void | SetDayInYear (int a_value) |
| Sets the day in year attribute. More... | |
| static void | SetOurLandscape (Landscape *a_value) |
| Sets the landscape pointer. More... | |
| static void | SetTempToday (double a_value) |
| Sets the temperature today attribute. More... | |
| Static Public Member Functions inherited from TALMaSSObject | |
| static void | OnArrayBoundsError () |
| Used for debugging only, tests basic object properties. More... | |
| Static Public Member Functions inherited from Beetle_Pupae | |
| static void | SetDailyPupaeMort (const double a_value) |
| Set the daily fixed mortality probability. More... | |
| static void | SetPupaMaxAge (const int a_value) |
| Set the max age. More... | |
| static void | SetPupalPPPElimRate (const double a_rate) |
| static void | SetPPPPThreshold (const double a_thresh) |
| static void | SetPPPPEffectProb (const double a_conc) |
| static void | SetPPPPEffectProbDecay (const double a_decay) |
| static void | SetPupa_SoilCultivationMortality (const double a_value) |
| Set Pupal soil mortality parameter. More... | |
| static void | SetPupa_InsecticideApplication (const double a_value) |
| Set Pupal insecticide mortality parameter. More... | |
| static void | SetPupa_StriglingMort (const double a_value) |
| Set mechanical weeding mortality parameter. More... | |
| static void | SetPupa_HarvestMort (const double a_value) |
| Set harvest mortality parameter. More... | |
| Static Public Attributes inherited from Beetle_Base | |
| static vector< SimplePositionMapInt * > | m_BeetleMaps = {} |
| A list of pointers to the specific map for a beetle lifestage. More... | |
| Protected Member Functions inherited from Ladybird_Base | |
| void | EatToday (const int a_add) |
| Adds to the counter of eaten aphids. More... | |
| virtual int | GetEatenToday () const |
| return the value of daily aphid consumption counter More... | |
| virtual void | SetEatenToday (int a) |
| set the value of the counter of eaten aphids More... | |
| int | GetAphidsToEat () |
| return how many aphids are left to be eaten More... | |
| virtual int | GetAphidsAppetite () |
| The function returns the aphids appetite (virtual function stub: to be overridden) More... | |
| virtual void | ResetAphidsAppetite () |
| reset the appetite to zero More... | |
| virtual int | EatAphids (int a_x, int a_y, int a_appetite) |
| the method that is responsible for aphid foraging behaviour (removes the aphids from the aphid model) More... | |
| int | Cannibalise (int a_appetite) |
| Perform the cannibalisation behaviour from the perspective of a cannibal : receives the appetite to fulfill, returns how much is left to be eaten after an attempt to cannibalise. More... | |
| virtual void | CalcAphidsAppetite () |
| Calculates the appetite of aphids based on the age (Arshad et al, 2017) More... | |
| bool | CanMove () |
| returns true if the beetle can still move today More... | |
| int | GetMaxDailyDistance () |
| Protected Member Functions inherited from Beetle_Base | |
| virtual void | Init (Beetle_Population_Manager *a_bpm_ptr) |
| Init for a beetle object. More... | |
| bool | OnFarmEvent (FarmToDo event) override |
| the farming event mortality. This is the function that is used for all the beetles. It calls methods that are re-defined by object and by method. More... | |
| virtual bool | CheckManagementBeetle () |
| virtual double | TempRelatedMortality () |
| Basic movement for beetle. More... | |
| virtual int | GetDDepthRange () const |
| range at which density dependent mortality is applied - base class does not override, but others might need to More... | |
| void | Beetle_1M_Move (int a_dist) |
| The function that calculates the cumulative probability for the movement direction. It calls the movement factor method and processes ints result to adjust "p" (by reference) More... | |
| virtual bool | IsLocationAllowed (int x, int y) |
| virtual double | GetShortRangeDistance () const |
| returns the length of the short range hop More... | |
| virtual double | MovementFactor (int x, int y, int x1, int y1) |
| function that calculates the factor that is taken into account when considering the movement of the individual More... | |
| virtual bool | DailyMortality () |
| Checks daily mortality returns true on death, default, no death. More... | |
| Protected Member Functions inherited from TAnimal | |
| void | CorrectWrapRound () |
| Corrects wrap around co-ordinate problems. More... | |
| Protected Member Functions inherited from Beetle_Pupae | |
| int | CalcLengthOfStageAtTemp (int a_temp2) const |
| calculates the length of the pupal stage depending on the temperature More... | |
| double | GetDailyMortalityRate () const override |
| returns daily background mortality rate More... | |
| Static Protected Member Functions inherited from Ladybird_Base | |
| static int | GetTempMortRange (double a_temp) |
| returns the mortality range that corresponds to the temperature More... | |
| Protected Attributes inherited from Ladybird_Base | |
| int | m_EatenToday { 0 } |
| number of aphids or aphid equivalents eaten today More... | |
| int | m_WantToEatToday { 0 } |
| number of ladybird larvae younger than this to eat in EndStep More... | |
| int | m_AphidsAppetite { 0 } |
| the today's appetite More... | |
| int | m_MoveCounter { 0 } |
| the counter of the steps made today More... | |
| Ladybird_Population_Manager * | m_OurPopulationLadybird { nullptr } |
| pointer to the population manager More... | |
| Protected Attributes inherited from Beetle_Base | |
| TTypesOfBeetleState | m_CurrentBState { tobs_Initiation } |
| Current behavioural state. More... | |
| Beetle_Population_Manager * | m_OurPopulation { nullptr } |
| Pointer to the population manager. More... | |
| double | m_BodyBurden { -1.0 } |
| Current body burden of pesticide. More... | |
| double | m_CurrentPppEffectProb { -1.0 } |
| Current effect probability. More... | |
| unsigned | m_Lifestage { 0 } |
| This is a useful parameter holding the beetle type (this includes larval stages) More... | |
| Protected Attributes inherited from TAnimal | |
| int | m_Location_x |
| The objects ALMaSS x coordinate. More... | |
| int | m_Location_y |
| The objects ALMaSS y coordinate. More... | |
| int | m_guard_cell_x |
| The index x to the guard cell. More... | |
| int | m_guard_cell_y |
| The index y to the guard cell. More... | |
| int | m_AgeDays {0} |
| To hold the age in days. More... | |
| PesticideToxicity | m_my_pesticide |
| Protected Attributes inherited from TALMaSSObject | |
| int | m_CurrentStateNo |
| The basic state number for all objects - '-1' indicates death. More... | |
| bool | m_StepDone |
| Indicates whether the iterative step code is done for this timestep. More... | |
| Protected Attributes inherited from Beetle_Pupae | |
| double | m_AgeDegrees |
| Record pupal day degrees. More... | |
| int | m_DayMade |
| Static Protected Attributes inherited from Ladybird_Base | |
| static vector< int > | m_LadybirdStagesNutritionalValue = {} |
| Holds the aphid equivalents of each ladybird stage. More... | |
| Static Protected Attributes inherited from Beetle_Base | |
| static vector< double > | m_DevelopmentConstants = {} |
| Day degree constant, the target to reach before next stage. More... | |
| static std::unique_ptr< probability_distribution > | m_Move_distribution = nullptr |
| Probabilty of adult movement by distance to be defined by the probability type and parameters. More... | |
| static TTovList | m_BeetleSuitableForHibernation = {tov_Undefined} |
| the list of tovs that are suitable for hibernation More... | |
| static TToleList | m_BeetleReproductionLandscape = {tole_Foobar} |
| the list of toles that the beetles are allowed to reproduce upon More... | |
| static TToleList | m_BeetleHalfReproductionLandscape = {tole_Foobar} |
| the list of toles that the beetles are allowed to reproduce upon, but that yield half of normal fertility (bembidion) More... | |
| static int | m_DipsersalDayDegrees = 8 |
| static int | m_DDepRange = 3 |
| The depth of the surrounding cells for density dependence calculations in adults. More... | |
| static int | m_MaxShortRangeAttempts = 1 |
| The number of tries allowed to find a short range legal move. More... | |
| static int | m_TodaysTempCategory = 0 |
| Set the soiltemperature category used for calculatiung mortality steps. More... | |
| Static Protected Attributes inherited from TAnimal | |
| static Landscape * | m_OurLandscape = nullptr |
| A pointer to the landscape object shared with all TAnimal objects. More... | |
| static int | m_SimulationWidth = 0 |
| A static member for the simulation width because it is often used by descendent classes. More... | |
| static int | m_SimulationHeight = 0 |
| A static member for the simulation height because it is often used by descendent classes. More... | |
| static double | m_TemperatureToday = 0.0 |
| A holder for the temperature today shared with all TAnimal objects. More... | |
| static int | m_DayInYear = 0 |
| A holder for the day in year shared with all TAnimal objects. More... | |
| Static Protected Attributes inherited from Beetle_Pupae | |
| static double | m_DailyPupaeMort = 0.001 |
| Daily fixed mortality probability. More... | |
| static double | m_Pupa_StriglingMort = 0 |
| the mortality due to strigling More... | |
| static double | m_Pupa_HarvestMort = 0 |
| the mortality due to harvest More... | |
| static double | m_BeetlePupalPPPElimRate = 0 |
| the daily elimination rate for pesticides More... | |
| static double | m_BeetlePPPPThreshold = 0 |
| PPP effects threshold. More... | |
| static double | m_BeetlePPPPEffectProb = 0 |
| Effect probability on threshold excedence. More... | |
| static double | m_BeetlePPPPEffectProbDecay = 0 |
| Effect probability on threshold excedence. More... | |
| static double | m_Pupa_SoilCultivationMortality = 0 |
| The Pupal soil mortality parameter. More... | |
| static double | m_Pupa_InsecticideApplication = 0 |
| The pupal insecticide mortality parameter. More... | |
| static int | m_Pupa_MaxAge = 365 |
| The pupal maximum age, to prevent long survival in cold. More... | |
| Ladybird_Pupae::Ladybird_Pupae | ( | int | a_x, |
| int | a_y, | ||
| Landscape * | a_l_ptr, | ||
| Ladybird_Population_Manager * | a_bpm_ptr | ||
| ) |
Constructor method.
References lobs_Pupa, and Beetle_Base::m_Lifestage.
|
overridevirtual |
The standard method that is run before the Step() method.
Reimplemented from Beetle_Pupae.
References cfg_LadybirdMaxPupalLength, TAnimal::CheckManagement(), Beetle_Base::KillAndRemoveFromMap(), TAnimal::m_AgeDays, and CfgInt::value().
|
overridevirtual |
calculates the length of the pupal stage depending on the temperature
Reimplemented from Beetle_Pupae.
References cfg_LadybirdPupaTMortality, Ladybird_Base::GetTempMortRange(), TAnimal::m_TemperatureToday, and CfgArray_Double::value().
Referenced by St_Develop().
| void Ladybird_Pupae::ReInit | ( | int | a_x, |
| int | a_y, | ||
| Landscape * | a_l_ptr, | ||
| Ladybird_Population_Manager * | a_bpm_ptr | ||
| ) |
Constructor method.
References lobs_Pupa, Beetle_Base::m_Lifestage, Ladybird_Base::m_OurPopulationLadybird, and Beetle_Pupae::ReInit().
|
overridevirtual |
Pupal state development.
/brief This is a general develop function that makes use of functions that calculate daily mortality rates and length of the Pupa stage as a function of temperature.
Reimplemented from Beetle_Pupae.
References calcDailyMortChance(), Beetle_Pupae::CalcLengthOfStageAtTemp(), g_rand_uni_fnc(), Beetle_Pupae::m_DailyPupaeMort, Beetle_Pupae::m_DayMade, Beetle_Base::m_DevelopmentConstants, Beetle_Base::m_Lifestage, TAnimal::m_OurLandscape, Beetle_Base::m_OurPopulation, Beetle_Population_Manager::SupplyDayDegs(), Beetle_Population_Manager::SupplyDevelConst1(), Landscape::SupplyTemp(), tobs_BDying, tobs_Developing, and tobs_Emerging.
|
overridevirtual |
The method that removes the pupa and substitutes it by adult (called in the end of development)
Reimplemented from Beetle_Pupae.
References Ladybird_Population_Manager::CreateObjects(), Beetle_Base::DecDensity(), g_rand_uni_fnc(), lobs_Adult, TALMaSSObject::m_CurrentStateNo, TAnimal::m_Location_x, TAnimal::m_Location_y, TAnimal::m_OurLandscape, Beetle_Base::m_OurPopulation, Ladybird_Base::m_OurPopulationLadybird, and tobs_Destroy.
1.8.16 
