ReplicateRunner Class Reference

A thread that launches all the various replicates requested. More...

#include <ReplicateRunner.h>

Inheritance diagram for ReplicateRunner:

Collaboration diagram for ReplicateRunner:

Public Member Functions
	ReplicateRunner (int replicate, MESolverFactory solverFactory, map< string, string > *parameters, lm::io::ReactionModel *reactionModel, lm::io::DiffusionModel *diffusionModel, uint8_t *lattice, size_t latticeSize, uint8_t *latticeSites, size_t latticeSitesSize, ResourceAllocator::ComputeResources resources)
	Create a new replicate runner.
virtual	~ReplicateRunner ()
virtual void	wake ()
	Wake the thread from sleep.
virtual int	run ()
	Run the thread.
virtual int	getReplicate ()
	Get the current replicate number.
virtual bool	hasReplicateFinished ()
	Tell whether the previously running replicate has finished running.
virtual int	getReplicateExitCode ()
	Get the exit code for the last replicate to finish.
Public Member Functions inherited from lm::thread::Worker
	Worker ()
	Creates thread and attaches it to the manager.
virtual	~Worker ()
	Removes thread from manager and deletes thread.
virtual void	abort ()
	Set the aborted status for a thread and wakes thread.
virtual void	checkpoint ()
	Checkpoint (currently unimplemented)
Public Member Functions inherited from lm::thread::Thread
	Thread ()
	Creates a pthread locking mechanism and initializes "Thread".
virtual	~Thread ()
	Destory the Thread.
virtual void	start ()
	If no thread exists, creates a new thread and begins execution.
virtual void	stop ()
	Joins the thread with the parent waiting if necessary.
virtual pthread_t	getId ()
	Returns the pthread based id for the Thread.
virtual void	setAffinity (int cpuNumber)
	Binds the thread to a CPU core.

Protected Attributes
int	replicate
MESolverFactory	solverFactory
map< string, string > *	parameters
lm::io::ReactionModel *	reactionModel
lm::io::DiffusionModel *	diffusionModel
uint8_t *	lattice
size_t	latticeSize
uint8_t *	latticeSites
size_t	latticeSitesSize
ResourceAllocator::ComputeResources	resources
volatile bool	replicateFinished
volatile int	replicateExitCode
Protected Attributes inherited from lm::thread::Worker
volatile bool	aborted
Protected Attributes inherited from lm::thread::Thread
pthread_mutex_t	controlMutex
pthread_t	threadId
volatile bool	running
int	cpuNumber

Detailed Description

A thread that launches all the various replicates requested.

Constructor & Destructor Documentation

ReplicateRunner()

lm::main::ReplicateRunner::ReplicateRunner	(	int	replicate,
		MESolverFactory	solverFactory,
		map< string, string > *	parameters,
		lm::io::ReactionModel *	reactionModel,
		lm::io::DiffusionModel *	diffusionModel,
		uint8_t *	lattice,
		size_t	latticeSize,
		uint8_t *	latticeSites,
		size_t	latticeSitesSize,
		ResourceAllocator::ComputeResources	resources )

Create a new replicate runner.

Parameters

replicate	The number of the first replicate
solverFactory	The factory used to create a solver object for each replicate
parameters	A map of parameters for the simulation
reactionModel	An object to take care of reactions
diffusionModel	An object to take care of diffusion
lattice	The actual data representing the lattice
latticeSize	The size of the lattice in bytes
latticeSitesSize	The size of the lattice sites in bytes
resources	A manager for the resources that handles GPUs and CPUs

~ReplicateRunner()

lm::main::ReplicateRunner::~ReplicateRunner ( )

virtual

Member Function Documentation

getReplicate()

virtual int lm::main::ReplicateRunner::getReplicate ( )

inlinevirtual

Get the current replicate number.

getReplicateExitCode()

int lm::main::ReplicateRunner::getReplicateExitCode ( )

virtual

Get the exit code for the last replicate to finish.

hasReplicateFinished()

bool lm::main::ReplicateRunner::hasReplicateFinished ( )

virtual

Tell whether the previously running replicate has finished running.

run()

int lm::main::ReplicateRunner::run ( )

virtual

Run the thread.

Returns

0 on success, -1 on failure

Implements lm::thread::Thread.

wake()

void lm::main::ReplicateRunner::wake ( )

virtual

Wake the thread from sleep.

Implements lm::thread::Thread.

Member Data Documentation

diffusionModel

lm::io::DiffusionModel* lm::main::ReplicateRunner::diffusionModel

protected

lattice

uint8_t* lm::main::ReplicateRunner::lattice

protected

latticeSites

uint8_t* lm::main::ReplicateRunner::latticeSites

protected

latticeSitesSize

size_t lm::main::ReplicateRunner::latticeSitesSize

protected

latticeSize

size_t lm::main::ReplicateRunner::latticeSize

protected

parameters

map<string,string>* lm::main::ReplicateRunner::parameters

protected

reactionModel

lm::io::ReactionModel* lm::main::ReplicateRunner::reactionModel

protected

replicate

int lm::main::ReplicateRunner::replicate

protected

replicateExitCode

volatile int lm::main::ReplicateRunner::replicateExitCode

protected

replicateFinished

volatile bool lm::main::ReplicateRunner::replicateFinished

protected

resources

ResourceAllocator::ComputeResources lm::main::ReplicateRunner::resources

protected

solverFactory

MESolverFactory lm::main::ReplicateRunner::solverFactory

protected

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

• /data2/LM_zls_github/Lattice-Microbes/src/core/ReplicateRunner.h
• /data2/LM_zls_github/Lattice-Microbes/src/core/ReplicateRunner.cpp