Esempi in C++ (Cpp) per loadGenome

Esempio n. 1

File: refineAli.c Progetto: davidhoover/kent

int test(int argc, char *argv[])
{
int start, stop;

if (argc != 9 && argc != 10)
    usageErr();
inName = argv[0];
cdnaName = argv[1];
chromDir = argv[2];
goodLogName = argv[3];
badLogName = argv[4];
unusualName = argv[5];
errName = argv[6];
start = atoi(argv[7]);
stop = atoi(argv[8]);
if (start >= stop)
    usageErr();
if (argc == 10)
    c2gName = argv[9];

inFile = mustOpen(inName, "r");
goodLogFile = mustOpen(goodLogName, "w");
badLogFile = mustOpen(badLogName, "w");
unusualFile = mustOpen(unusualName, "w");
errFile = mustOpen(errName, "w");
pushWarnHandler(reportWarning);

dnaUtilOpen();

printf("Loading chromosomes\n");
loadGenome(chromDir, &chroms, &chromNames, &chromCount);
startRedoHash();

printf("Analysing %s\n", inName);
if (weAreWeb())
    htmlHorizontalLine();

analyse(start, stop);

//endRedoHash();
freeGenome(&chroms, &chromNames, chromCount);
popWarnHandler();
fclose(inFile);
fclose(goodLogFile);
fclose(badLogFile);
fclose(unusualFile);
fclose(errFile);
return 0;
}

Esempio n. 2

File: MedeaAltruismReplayWorldObserver.cpp Progetto: LoudRobed/Master

MedeaAltruismReplayWorldObserver::MedeaAltruismReplayWorldObserver( World *__world ) : WorldObserver( __world )
{
	_world = __world;

	// ==== loading project-specific properties 

	gProperties.checkAndGetPropertyValue("gSwarmOnlineObsUsed",&MedeaAltruismSharedData::gSwarmOnlineObsUsed,true);
	gProperties.checkAndGetPropertyValue("gDynamicSigma",&MedeaAltruismSharedData::gDynamicSigma,true);
	gProperties.checkAndGetPropertyValue("gSigmaMin",&MedeaAltruismSharedData::gSigmaMin,true);
	gProperties.checkAndGetPropertyValue("gProbAdd",&MedeaAltruismSharedData::gProbAdd,true);
	gProperties.checkAndGetPropertyValue("gProbSub",&MedeaAltruismSharedData::gProbSub,true);
	gProperties.checkAndGetPropertyValue("gDynaStep",&MedeaAltruismSharedData::gDynaStep,true);
	gProperties.checkAndGetPropertyValue("gSigmaRef",&MedeaAltruismSharedData::gSigmaRef,true);
	gProperties.checkAndGetPropertyValue("gSigmaMax",&MedeaAltruismSharedData::gSigmaMax,true);
	gProperties.checkAndGetPropertyValue("gProbRef",&MedeaAltruismSharedData::gProbRef,true);
	gProperties.checkAndGetPropertyValue("gProbMax",&MedeaAltruismSharedData::gProbMax,true);
	gProperties.checkAndGetPropertyValue("gEvaluationTime",&MedeaAltruismSharedData::gEvaluationTime,true);
	gProperties.checkAndGetPropertyValue("gDriftEvaluationRate",&MedeaAltruismSharedData::gDriftEvaluationRate,true);
	gProperties.checkAndGetPropertyValue("gInitLock",&MedeaAltruismSharedData::gInitLock,true);
	gProperties.checkAndGetPropertyValue("gDriftLock",&MedeaAltruismSharedData::gDriftLock,true);
	gProperties.checkAndGetPropertyValue("gMaxKeyRange",&MedeaAltruismSharedData::gMaxKeyRange,true);
	gProperties.checkAndGetPropertyValue("gDeltaKey",&MedeaAltruismSharedData::gDeltaKey,true);
	gProperties.checkAndGetPropertyValue("gSynchronization",&MedeaAltruismSharedData::gSynchronization,true);

	gProperties.checkAndGetPropertyValue("g_xStart_EnergyZone",&MedeaAltruismSharedData::g_xStart_EnergyZone,true);
	gProperties.checkAndGetPropertyValue("g_yStart_EnergyZone",&MedeaAltruismSharedData::g_yStart_EnergyZone,true);
	gProperties.checkAndGetPropertyValue("g_xEnd_EnergyZone",&MedeaAltruismSharedData::g_xEnd_EnergyZone,true);
	gProperties.checkAndGetPropertyValue("g_yEnd_EnergyZone",&MedeaAltruismSharedData::g_yEnd_EnergyZone,true);

	gProperties.checkAndGetPropertyValue("gZoneEnergy_maxHarvestValue",&MedeaAltruismSharedData::gZoneEnergy_maxHarvestValue,true);
	gProperties.checkAndGetPropertyValue("gZoneEnergy_minHarvestValue",&MedeaAltruismSharedData::gZoneEnergy_minHarvestValue,true);
	gProperties.checkAndGetPropertyValue("gZoneEnergy_maxFullCapacity",&MedeaAltruismSharedData::gZoneEnergy_maxFullCapacity,true);
	gProperties.checkAndGetPropertyValue("gZoneEnergy_saturateCapacityLevel",&MedeaAltruismSharedData::gZoneEnergy_saturateCapacityLevel,true);
	
	gProperties.checkAndGetPropertyValue("gDeadTime",&MedeaAltruismSharedData::gDeadTime,true);
	gProperties.checkAndGetPropertyValue("gEnergyMax",&MedeaAltruismSharedData::gEnergyMax,true);
	gProperties.checkAndGetPropertyValue("gEnergyInit",&MedeaAltruismSharedData::gEnergyInit,true);
	gProperties.checkAndGetPropertyValue("gEnergyRevive",&MedeaAltruismSharedData::gEnergyRevive,true);
	
	gProperties.checkAndGetPropertyValue("gMaxPenalizationRate",&MedeaAltruismSharedData::gMaxPenalizationRate,true);
	if ( MedeaAltruismSharedData::gMaxPenalizationRate < 0 || MedeaAltruismSharedData::gMaxPenalizationRate > 1 )
	{
		std::cerr << "gMaxPenalizationRate should be defined btw O and 1" << std::endl;
		exit(-1);
	}
	
	gProperties.checkAndGetPropertyValue("gDynamicRespawn",&MedeaAltruismSharedData::gDynamicRespawn,true); // forced, in this setup.
	gProperties.checkAndGetPropertyValue("gThresholdIncreaseRespawn",&MedeaAltruismSharedData::gThresholdIncreaseRespawn,true); 
	gProperties.checkAndGetPropertyValue("gLowestBoundRespawn",&MedeaAltruismSharedData::gLowestBoundRespawn,true); 
	gProperties.checkAndGetPropertyValue("gHighestBoundRespawn",&MedeaAltruismSharedData::gHighestBoundRespawn,true); 
	
	gProperties.checkAndGetPropertyValue("fixedCost",&fixedCost,true);
	gProperties.checkAndGetPropertyValue("exponentialFactor",&exponentialFactor,true);

	// ====

	if ( !gRadioNetwork)
	{
		std::cout << "Error : gRadioNetwork == false. The swarm online observer need the radio network" << std::endl;
		exit(1);
	}
	
	if ( !MedeaAltruismSharedData::gSwarmOnlineObsUsed)
	{
		std::cout << "Error : gSwarmOnlineObsUsed == false. The swarm online observer need some variables. Define this option to true or use another observer" << std::endl;
		exit(1);
	}

	if ( !gEnergyMode )
	{
		std::cout << "Error : gEnergyMode should be true to use SwarmOnlineObserver" << std::endl;
		exit(1);
	}
	
	// * iteration and generation counters
	
	_lifeIterationCount = -1;
	_generationCount = -1;

	_firstStep = true;
	loadGenome();
}