AvidaGP.hpp

This is a simple, efficient CPU for and applied version of Avida.

Todo:

Should we save a copy of the original genome? (or create a new “memory” member)

We should clean up how we handle scope; the root scope is zero, so the arg-based scopes are 1-16 (or however many). Right now we increment the value in various places and should be more consistent.

How should Avida-GP organisms take an action? Options include sending ALL outputs and picking the maximum field; sending a single output and using its value; having specialized commands…

template<typename HARDWARE> class AvidaCPU_Base

#include <AvidaGP.hpp>

Public Types

using this_t = AvidaCPU_Base<HARDWARE>

using hardware_t = HARDWARE 

using inst_t = Instruction 

using arg_t = size_t

using inst_lib_t = AvidaCPU_InstLib<hardware_t, arg_t, INST_ARGS>

using genome_t = Genome<Instruction, inst_lib_t>

using stack_t = vector<double>

using arg_set_t = array<arg_t, INST_ARGS>

Public Functions

inline void ExitScope()

inline bool UpdateScope(size_t new_scope, ScopeType type = ScopeType::BASIC)

inline void BypassScope(size_t scope)

inline AvidaCPU_Base(const genome_t &in_genome): Create a new AvidaCPU seeding it with a genome.

inline AvidaCPU_Base(): Create a default AvidaCPU (no genome sequence, default instruction set)

inline AvidaCPU_Base(Ptr<const inst_lib_t> inst_lib): Create an AvidaCPU with a specified instruction set (but no genome sequence)

inline AvidaCPU_Base(const inst_lib_t &inst_lib)

AvidaCPU_Base(const AvidaCPU_Base&) = default: Copy constructor.

AvidaCPU_Base(AvidaCPU_Base&&) = default: Move constructor.

inline virtual ~AvidaCPU_Base(): Destructor.

inline bool operator<(const this_t &other) const

inline bool operator!=(const this_t &other) const

inline void Reset(): Reset the entire CPU to a starting state, without a genome.

inline virtual void ResetHardware(): Reset just the CPU hardware, but keep the genome and traits.

inline void ResetIP(): Reset the instruction pointer to the beginning of the genome AND reset scope.

inline Ptr<const inst_lib_t> GetInstLib() const

inline inst_t GetInst(size_t pos) const

inline inst_t &operator[](size_t pos)

inline const genome_t &GetGenome() const

inline size_t GetSize() const

inline size_t size() const

inline double GetReg(size_t id) const

inline double GetInput(int id) const

inline const std::unordered_map<int, double> &GetInputs() const

inline size_t GetNumInputs() const

inline double GetOutput(int id) const

inline const std::unordered_map<int, double> &GetOutputs() const

inline size_t GetNumOutputs() const

inline const stack_t &GetStack(size_t id) const

inline int GetFunStart(size_t id) const

inline size_t GetIP() const

inline vector<ScopeInfo> GetScopeStack() const

inline size_t CurScope() const

inline ScopeType CurScopeType() const

inline ScopeType GetScopeType(size_t id)

inline vector<RegBackup> GetRegStack() const

inline vector<size_t> GetCallStack() const

inline size_t GetNumErrors() const

inline double GetTrait(size_t id) const

inline const vector<double> &GetTraits()

inline size_t GetNumTraits() const

inline void SetInst(size_t pos, const inst_t &inst)

inline void SetInst(size_t pos, size_t id, size_t a0 = 0, size_t a1 = 0, size_t a2 = 0)

inline void SetGenome(const genome_t &g)

inline void SetReg(size_t id, double val)

inline void SetInput(int input_id, double value)

inline void SetInputs(const std::unordered_map<int, double> &vals)

inline void SetInputs(std::unordered_map<int, double> &&vals)

inline void SetInputs(const vector<double> &vals)

inline void SetOutput(int output_id, double value)

inline void SetOutputs(const std::unordered_map<int, double> &vals)

inline void SetOutputs(std::unordered_map<int, double> &&vals)

inline double PopStack(size_t id)

inline void PushStack(size_t id, double value)

inline void SetFunStart(size_t id, int value)

inline void SetIP(size_t pos)

inline void PushRegInfo(size_t scope_id, size_t reg_id)

inline void PushCallInfo(size_t pos)

inline void IncErrors()

inline void SetTrait(size_t id, double val)

inline void PushTrait(double val)

inline inst_t GetRandomInst(Random &rand)

inline void RandomizeInst(size_t pos, Random &rand)

inline void PushInst(size_t id, size_t a0 = 0, size_t a1 = 0, size_t a2 = 0): Add a new instruction to the end of the genome, by ID and args.

inline void PushInst(const std::string &name, size_t a0 = 0, size_t a1 = 0, size_t a2 = 0): Add a new instruction to the end of the genome, by NAME and args.

inline void PushInst(const Instruction &inst): Add a specified new instruction to the end of the genome.

inline void PushInst(const Instruction &inst, size_t count): Add multiple copies of a specified instruction to the end of the genome.

inline void PushDefaultInst(size_t count = 1): Add one or more default instructions to the end of the genome.

inline void PushInstString(std::string info)

inline void PushRandom(Random &random, const size_t count = 1)

bool Load(std::istream &input)

inline bool Load(const std::string &filename)

inline void ProcessInst(const inst_t &inst): Process a specified instruction, provided by the caller.

size_t InstScope(const inst_t &inst) const: Determine the scope associated with a particular instruction.

inline void SingleProcess(): Process the NEXT instruction pointed to be the instruction pointer.

inline void Process(size_t num_inst): Process the next SERIES of instructions, directed by the instruction pointer.

void PrintInst(const inst_t &inst, std::ostream &os = std::cout) const: Print out a single instruction, with its arguments.

void PrintGenome(std::ostream &os = std::cout) const: Print out this program.

void PrintGenome(const std::string &filename) const

void PrintSymbols(std::ostream &os = std::cout) const: Print out a short version of the genome as a single string.

inline std::string ToString() const: Convert the current state to a string.

size_t PredictNextInst() const: Figure out which instruction is going to actually be run next SingleProcess()

void PrintState(std::ostream &os = std::cout) const: Print out the state of the virtual CPU.

inline void Trace(size_t num_inst, std::ostream &os = std::cout): Trace the instructions being exectured, with full CPU details.

inline void Trace(size_t num_inst, const std::string &filename)

Public Members

genome_t genome

array<double, CPU_SIZE> regs

std::unordered_map<int, double> inputs

std::unordered_map<int, double> outputs

array<stack_t, CPU_SIZE> stacks

array<int, CPU_SIZE> fun_starts

size_t inst_ptr

vector<ScopeInfo> scope_stack

vector<RegBackup> reg_stack

vector<size_t> call_stack

size_t errors

vector<double> traits

Public Static Attributes

static constexpr size_t CPU_SIZE = 16

static constexpr size_t INST_ARGS = 3

static constexpr size_t STACK_CAP = 16

struct Instruction : public InstructionBase

#include <AvidaGP.hpp>

Public Functions

inline Instruction(size_t _id = 0, size_t a0 = 0, size_t a1 = 0, size_t a2 = 0)

Instruction(const Instruction&) = default

Instruction(Instruction&&) = default

Instruction &operator=(const Instruction&) = default

Instruction &operator=(Instruction&&) = default

inline bool operator<(const Instruction &in) const

inline bool operator==(const Instruction &in) const

inline bool operator!=(const Instruction &in) const

inline bool operator>(const Instruction &in) const

inline bool operator>=(const Instruction &in) const

inline bool operator<=(const Instruction &in) const

inline void Set(size_t _id, size_t _a0 = 0, size_t _a1 = 0, size_t _a2 = 0)

inline size_t GetIndex() const override

Public Members

size_t id

arg_set_t args

struct RegBackup

#include <AvidaGP.hpp>

Public Functions

inline RegBackup()

inline RegBackup(size_t _s, size_t _r, double _v)

Public Members

size_t scope

size_t reg_id

double value

struct ScopeInfo

#include <AvidaGP.hpp>

Public Functions

inline ScopeInfo()

inline ScopeInfo(size_t _s, ScopeType _t, size_t _p)

Public Members

size_t scope

ScopeType type

size_t start_pos

class AvidaGP : public AvidaCPU_Base<AvidaGP>

#include <AvidaGP.hpp>

Public Types

using base_t = AvidaCPU_Base<AvidaGP>

Public Functions

inline AvidaGP(const genome_t &in_genome)

inline AvidaGP(Ptr<const inst_lib_t> inst_lib)

inline AvidaGP(const inst_lib_t &inst_lib)

AvidaGP() = default

AvidaGP(const AvidaGP&) = default

AvidaGP(AvidaGP&&) = default

inline virtual ~AvidaGP()