Search Toolkit Book for SPubseqGatewaySettings

#include "settings.hpp"
(Private to src/app/pubseq_gateway/server.)

Collaboration diagram for SPubseqGatewaySettings:

Public Member Functions
	SPubseqGatewaySettings ()

	~SPubseqGatewaySettings ()

void	Read (const CNcbiRegistry &registry, CPSGAlerts &alerts)

void	Validate (CPSGAlerts &alerts)

size_t	GetProcessorMaxConcurrency (const CNcbiRegistry &registry, const string &processor_id)

bool	IsAuthProtectedCommand (const string &cmd) const

Public Attributes
unsigned short	m_HttpPort

unsigned short	m_HttpWorkers

unsigned int	m_ListenerBacklog

unsigned short	m_TcpMaxConn

unsigned int	m_TimeoutMs

unsigned int	m_MaxRetries

unsigned long	m_SendBlobIfSmall

bool	m_Log

int	m_MaxHops

double	m_ResendTimeoutSec

double	m_RequestTimeoutSec

size_t	m_ProcessorMaxConcurrency

size_t	m_SplitInfoBlobCacheSize

size_t	m_ShutdownIfTooManyOpenFD

string	m_RootKeyspace

string	m_ConfigurationDomain

size_t	m_HttpMaxBacklog

size_t	m_HttpMaxRunning

size_t	m_LogSamplingRatio

size_t	m_LogTimingThreshold

unsigned long	m_SmallBlobSize

unsigned long	m_MinStatValue

unsigned long	m_MaxStatValue

unsigned long	m_NStatBins

string	m_StatScaleType

unsigned long	m_TickSpan

string	m_OnlyForProcessor

string	m_Si2csiDbFile

string	m_BioseqInfoDbFile

string	m_BlobPropDbFile

unsigned int	m_ExcludeCacheMaxSize

unsigned int	m_ExcludeCachePurgePercentage

unsigned int	m_ExcludeCacheInactivityPurge

bool	m_AllowIOTest

bool	m_AllowProcessorTiming

int	m_IPGPageSize

bool	m_EnableHugeIPG

string	m_AuthToken

vector< string >	m_AuthCommands

bool	m_SSLEnable

string	m_SSLCertFile

string	m_SSLKeyFile

string	m_SSLCiphers

vector< string >	m_CriticalDataSources

double	m_HealthTimeoutSec

bool	m_CassandraProcessorsEnabled

string	m_CassandraProcessorHealthCommand

double	m_CassandraHealthTimeoutSec

string	m_LMDBProcessorHealthCommand

double	m_LMDBHealthTimeoutSec

bool	m_CDDProcessorsEnabled

string	m_CDDProcessorHealthCommand

double	m_CDDHealthTimeoutSec

bool	m_WGSProcessorsEnabled

string	m_WGSProcessorHealthCommand

double	m_WGSHealthTimeoutSec

bool	m_SNPProcessorsEnabled

string	m_SNPProcessorHealthCommand

double	m_SNPHealthTimeoutSec

map< string, tuple< string, string > >	m_IdToNameAndDescription

size_t	m_MyNCBIOKCacheSize

size_t	m_MyNCBINotFoundCacheSize

size_t	m_MyNCBINotFoundCacheExpirationSec

size_t	m_MyNCBIErrorCacheSize

size_t	m_MyNCBIErrorCacheBackOffMs

string	m_MyNCBIURL

string	m_MyNCBIHttpProxy

size_t	m_MyNCBITimeoutMs

size_t	m_MyNCBIResolveTimeoutMs

Private Member Functions
void	x_ReadServerSection (const CNcbiRegistry &registry)

void	x_ReadStatisticsSection (const CNcbiRegistry &registry)

void	x_ReadLmdbCacheSection (const CNcbiRegistry &registry)

void	x_ReadAutoExcludeSection (const CNcbiRegistry &registry)

void	x_ReadDebugSection (const CNcbiRegistry &registry)

void	x_ReadIPGSection (const CNcbiRegistry &registry)

void	x_ReadAdminSection (const CNcbiRegistry &registry, CPSGAlerts &alerts)

void	x_ReadSSLSection (const CNcbiRegistry &registry)

void	x_ReadHealthSection (const CNcbiRegistry &registry, CPSGAlerts &alerts)

void	x_ReadCassandraProcessorSection (const CNcbiRegistry &registry, CPSGAlerts &alerts)

void	x_ReadLMDBProcessorSection (const CNcbiRegistry &registry, CPSGAlerts &alerts)

void	x_ReadCDDProcessorSection (const CNcbiRegistry &registry, CPSGAlerts &alerts)

void	x_ReadWGSProcessorSection (const CNcbiRegistry &registry, CPSGAlerts &alerts)

void	x_ReadSNPProcessorSection (const CNcbiRegistry &registry, CPSGAlerts &alerts)

void	x_ReadMyNCBISection (const CNcbiRegistry &registry)

void	x_ReadCountersSection (const CNcbiRegistry &registry)

unsigned long	x_GetDataSize (const CNcbiRegistry &registry, const string &section, const string &entry, unsigned long default_val)

Detailed Description

Definition at line 42 of file settings.hpp.

Constructor & Destructor Documentation

◆ SPubseqGatewaySettings()

SPubseqGatewaySettings::SPubseqGatewaySettings ( )

Definition at line 125 of file settings.cpp.

◆ ~SPubseqGatewaySettings()

SPubseqGatewaySettings::~SPubseqGatewaySettings ( )

Definition at line 187 of file settings.cpp.

Member Function Documentation

◆ GetProcessorMaxConcurrency()

size_t SPubseqGatewaySettings::GetProcessorMaxConcurrency	(	const CNcbiRegistry &	registry,
		const string &	processor_id
	)

Definition at line 1004 of file settings.cpp.

References IRegistry::GetInt(), IRegistry::HasEntry(), m_ProcessorMaxConcurrency, PSG_WARNING, and registry.

Referenced by CPubseqGatewayApp::GetProcessorMaxConcurrency().

◆ IsAuthProtectedCommand()

bool SPubseqGatewaySettings::IsAuthProtectedCommand ( const string & cmd ) const

Definition at line 1032 of file settings.cpp.

References cmd, and m_AuthCommands.

Referenced by CPubseqGatewayApp::x_CheckAuthorization().

◆ Read()

void SPubseqGatewaySettings::Read	(	const CNcbiRegistry &	registry,
		CPSGAlerts &	alerts
	)

◆ Validate()

void SPubseqGatewaySettings::Validate ( CPSGAlerts & alerts )

Definition at line 648 of file settings.cpp.

References NStr::CompareNocase(), ePSGS_ConfigExcludeCacheInactivity, ePSGS_ConfigExcludeCachePurgeSize, ePSGS_ConfigExcludeCacheSize, ePSGS_ConfigHttpWorkers, ePSGS_ConfigListenerBacklog, ePSGS_ConfigMaxConnections, ePSGS_ConfigRetries, ePSGS_ConfigStatMinMaxVal, ePSGS_ConfigStatNBins, ePSGS_ConfigStatScaleType, ePSGS_ConfigTimeout, kDefaultExcludeCacheInactivityPurge, kDefaultExcludeCachePurgePercentage, kDefaultHttpMaxBacklog, kDefaultHttpMaxRunning, kDefaultIPGPageSize, kDefaultLogSamplingRatio, kDefaultLogTimingThreshold, kDefaultMaxHops, kDefaultMyNCBIResolveTimeoutMs, kDefaultMyNCBITimeoutMs, kDefaultMyNCBIURL, kDefaultProcessorMaxConcurrency, kDefaultRequestTimeoutSec, kDefaultResendTimeoutSec, kDefaultSSLCiphers, kIPGSection, kListenerBacklogDefault, kLmdbCacheSection, kMaxRetriesDefault, kMaxStatValue, kMinStatValue, kMyNCBISection, kNStatBins, kServerSection, kSSLSection, kStatisticsSection, kStatScaleType, kTcpMaxConnDefault, kTickSpan, kTimeoutDefault, kWorkersDefault, m_BioseqInfoDbFile, m_BlobPropDbFile, m_ExcludeCacheInactivityPurge, m_ExcludeCacheMaxSize, m_ExcludeCachePurgePercentage, m_HttpMaxBacklog, m_HttpMaxRunning, m_HttpPort, m_HttpWorkers, m_IPGPageSize, m_ListenerBacklog, m_LogSamplingRatio, m_LogTimingThreshold, m_MaxHops, m_MaxRetries, m_MaxStatValue, m_MinStatValue, m_MyNCBIResolveTimeoutMs, m_MyNCBITimeoutMs, m_MyNCBIURL, m_NStatBins, m_ProcessorMaxConcurrency, m_RequestTimeoutSec, m_ResendTimeoutSec, m_Si2csiDbFile, m_SSLCertFile, m_SSLCiphers, m_SSLEnable, m_SSLKeyFile, m_StatScaleType, m_TcpMaxConn, m_TickSpan, m_TimeoutMs, NCBI_THROW, PSG_ERROR, PSG_WARNING, and CPSGAlerts::Register().

Referenced by CPubseqGatewayApp::ParseArgs().

◆ x_GetDataSize()

unsigned long SPubseqGatewaySettings::x_GetDataSize	(	const CNcbiRegistry &	registry,
		const string &	section,
		const string &	entry,
		unsigned long	default_val
	)

private

Definition at line 985 of file settings.cpp.

References CConfig::eErr_NoThrow, eNoOwnership, CTreeNode< TValue, TKeyGetterP >::FindSubNode(), CConfig::GetDataSize(), CConfig::GetTree(), and registry.

Referenced by x_ReadServerSection(), and x_ReadStatisticsSection().

◆ x_ReadAdminSection()

void SPubseqGatewaySettings::x_ReadAdminSection	(	const CNcbiRegistry &	registry,
		CPSGAlerts &	alerts
	)

private

Definition at line 609 of file settings.cpp.

References ePSGS_ConfigAuthDecrypt, ERR_POST, IRegistry::fPlaintextAllowed, IRegistry::GetEncryptedString(), IRegistry::GetString(), kAdminSection, kDefaultAuthCommands, kDefaultAuthToken, m_AuthCommands, m_AuthToken, msg(), CPSGAlerts::Register(), registry, NStr::Split(), string, tolower(), and transform().

Referenced by Read().

◆ x_ReadAutoExcludeSection()

void SPubseqGatewaySettings::x_ReadAutoExcludeSection ( const CNcbiRegistry & registry )

private

Definition at line 310 of file settings.cpp.

References IRegistry::GetInt(), kAutoExcludeSection, kDefaultExcludeCacheInactivityPurge, kDefaultExcludeCacheMaxSize, kDefaultExcludeCachePurgePercentage, m_ExcludeCacheInactivityPurge, m_ExcludeCacheMaxSize, m_ExcludeCachePurgePercentage, and registry.

Referenced by Read().

◆ x_ReadCassandraProcessorSection()

void SPubseqGatewaySettings::x_ReadCassandraProcessorSection	(	const CNcbiRegistry &	registry,
		CPSGAlerts &	alerts
	)

private

Definition at line 409 of file settings.cpp.

References ePSGS_ConfigCassandraHealthTimeout, IRegistry::GetBool(), IRegistry::GetDouble(), IRegistry::GetString(), kCassandraProcessorSection, kDefaultCassandraHealthTimeoutSec, kDefaultCassandraProcessorHealthCommand, kDefaultCassandraProcessorsEnabled, kDefaultHealthTimeout, m_CassandraHealthTimeoutSec, m_CassandraProcessorHealthCommand, m_CassandraProcessorsEnabled, m_HealthTimeoutSec, PSG_ERROR, CPSGAlerts::Register(), and registry.

Referenced by Read().

◆ x_ReadCDDProcessorSection()

void SPubseqGatewaySettings::x_ReadCDDProcessorSection	(	const CNcbiRegistry &	registry,
		CPSGAlerts &	alerts
	)

private

Definition at line 466 of file settings.cpp.

References ePSGS_ConfigCDDHealthTimeout, IRegistry::GetBool(), IRegistry::GetDouble(), IRegistry::GetString(), kCDDProcessorSection, kDefaultCDDHealthTimeoutSec, kDefaultCDDProcessorHealthCommand, kDefaultCDDProcessorsEnabled, kDefaultHealthTimeout, m_CDDHealthTimeoutSec, m_CDDProcessorHealthCommand, m_CDDProcessorsEnabled, m_HealthTimeoutSec, PSG_ERROR, CPSGAlerts::Register(), and registry.

Referenced by Read().

◆ x_ReadCountersSection()

void SPubseqGatewaySettings::x_ReadCountersSection ( const CNcbiRegistry & registry )

private

Definition at line 588 of file settings.cpp.

References entries, IRegistry::EnumerateEntries(), NStr::fSplit_ByPattern, IRegistry::Get(), kCountersSection, m_IdToNameAndDescription, PSG_WARNING, registry, and NStr::SplitInTwo().

Referenced by Read().

◆ x_ReadDebugSection()

void SPubseqGatewaySettings::x_ReadDebugSection ( const CNcbiRegistry & registry )

private

Definition at line 324 of file settings.cpp.

References IRegistry::GetBool(), kDebugSection, kDefaultAllowIOTest, kDefaultAllowProcessorTiming, m_AllowIOTest, m_AllowProcessorTiming, and registry.

Referenced by Read().

◆ x_ReadHealthSection()

void SPubseqGatewaySettings::x_ReadHealthSection	(	const CNcbiRegistry &	registry,
		CPSGAlerts &	alerts
	)

private

Definition at line 355 of file settings.cpp.

References ePSGS_ConfigHealthTimeout, NStr::fSplit_MergeDelimiters, NStr::fSplit_Truncate, IRegistry::GetDouble(), IRegistry::GetString(), kDefaultCriticalDataSources, kDefaultHealthTimeout, kHealthSection, m_CriticalDataSources, m_HealthTimeoutSec, PSG_ERROR, PSG_WARNING, CPSGAlerts::Register(), registry, ct::sort(), NStr::Split(), tolower(), and transform().

Referenced by Read().

◆ x_ReadIPGSection()

void SPubseqGatewaySettings::x_ReadIPGSection ( const CNcbiRegistry & registry )

private

Definition at line 333 of file settings.cpp.

References IRegistry::GetBool(), IRegistry::GetInt(), kDefaultEnableHugeIPG, kDefaultIPGPageSize, kIPGSection, m_EnableHugeIPG, m_IPGPageSize, and registry.

Referenced by Read().

◆ x_ReadLmdbCacheSection()

void SPubseqGatewaySettings::x_ReadLmdbCacheSection ( const CNcbiRegistry & registry )

private

Definition at line 299 of file settings.cpp.

References IRegistry::GetString(), kLmdbCacheSection, m_BioseqInfoDbFile, m_BlobPropDbFile, m_Si2csiDbFile, and registry.

Referenced by Read().

◆ x_ReadLMDBProcessorSection()

void SPubseqGatewaySettings::x_ReadLMDBProcessorSection	(	const CNcbiRegistry &	registry,
		CPSGAlerts &	alerts
	)

private

Definition at line 439 of file settings.cpp.

References ePSGS_ConfigLMDBHealthTimeout, IRegistry::GetDouble(), IRegistry::GetString(), kDefaultHealthTimeout, kDefaultLMDBHealthTimeoutSec, kDefaultLMDBProcessorHealthCommand, kLMDBProcessorSection, m_HealthTimeoutSec, m_LMDBHealthTimeoutSec, m_LMDBProcessorHealthCommand, PSG_ERROR, CPSGAlerts::Register(), and registry.

Referenced by Read().

◆ x_ReadMyNCBISection()

void SPubseqGatewaySettings::x_ReadMyNCBISection ( const CNcbiRegistry & registry )

private

◆ x_ReadServerSection()

void SPubseqGatewaySettings::x_ReadServerSection ( const CNcbiRegistry & registry )

private

Definition at line 218 of file settings.cpp.

References IRegistry::GetBool(), IRegistry::GetDouble(), IRegistry::GetInt(), IRegistry::GetString(), IRegistry::HasEntry(), kDefaultConfigurationDomain, kDefaultHttpMaxBacklog, kDefaultHttpMaxRunning, kDefaultLog, kDefaultLogSamplingRatio, kDefaultLogTimingThreshold, kDefaultMaxHops, kDefaultProcessorMaxConcurrency, kDefaultRequestTimeoutSec, kDefaultResendTimeoutSec, kDefaultRootKeyspace, kDefaultSendBlobIfSmall, kDefaultShutdownIfTooManyOpenFDforHTTP, kDefaultShutdownIfTooManyOpenFDforHTTPS, kDefaultSplitInfoBlobCacheSize, kListenerBacklogDefault, kMaxRetriesDefault, kServerSection, kTcpMaxConnDefault, kTimeoutDefault, kWorkersDefault, m_ConfigurationDomain, m_HttpMaxBacklog, m_HttpMaxRunning, m_HttpPort, m_HttpWorkers, m_ListenerBacklog, m_Log, m_LogSamplingRatio, m_LogTimingThreshold, m_MaxHops, m_MaxRetries, m_ProcessorMaxConcurrency, m_RequestTimeoutSec, m_ResendTimeoutSec, m_RootKeyspace, m_SendBlobIfSmall, m_ShutdownIfTooManyOpenFD, m_SplitInfoBlobCacheSize, m_SSLEnable, m_TcpMaxConn, m_TimeoutMs, NCBI_THROW, registry, and x_GetDataSize().

Referenced by Read().

◆ x_ReadSNPProcessorSection()

void SPubseqGatewaySettings::x_ReadSNPProcessorSection	(	const CNcbiRegistry &	registry,
		CPSGAlerts &	alerts
	)

private

Definition at line 526 of file settings.cpp.

References ePSGS_ConfigSNPHealthTimeout, IRegistry::GetBool(), IRegistry::GetDouble(), IRegistry::GetString(), kDefaultHealthTimeout, kDefaultSNPHealthTimeoutSec, kDefaultSNPProcessorHealthCommand, kDefaultSNPProcessorsEnabled, kSNPProcessorSection, m_HealthTimeoutSec, m_SNPHealthTimeoutSec, m_SNPProcessorHealthCommand, m_SNPProcessorsEnabled, PSG_ERROR, CPSGAlerts::Register(), and registry.

Referenced by Read().

◆ x_ReadSSLSection()

void SPubseqGatewaySettings::x_ReadSSLSection ( const CNcbiRegistry & registry )

private

Definition at line 342 of file settings.cpp.

References IRegistry::GetBool(), IRegistry::GetString(), kDefaultSSLCertFile, kDefaultSSLCiphers, kDefaultSSLEnable, kDefaultSSLKeyFile, kSSLSection, m_SSLCertFile, m_SSLCiphers, m_SSLEnable, m_SSLKeyFile, and registry.

Referenced by Read().

◆ x_ReadStatisticsSection()

void SPubseqGatewaySettings::x_ReadStatisticsSection ( const CNcbiRegistry & registry )

private

Definition at line 279 of file settings.cpp.

References IRegistry::GetInt(), IRegistry::GetString(), kDefaultOnlyForProcessor, kDefaultSmallBlobSize, kMaxStatValue, kMinStatValue, kNStatBins, kStatisticsSection, kStatScaleType, kTickSpan, m_MaxStatValue, m_MinStatValue, m_NStatBins, m_OnlyForProcessor, m_SmallBlobSize, m_StatScaleType, m_TickSpan, registry, and x_GetDataSize().

Referenced by Read().

◆ x_ReadWGSProcessorSection()

void SPubseqGatewaySettings::x_ReadWGSProcessorSection	(	const CNcbiRegistry &	registry,
		CPSGAlerts &	alerts
	)

private

Definition at line 496 of file settings.cpp.

References ePSGS_ConfigWGSHealthTimeout, IRegistry::GetBool(), IRegistry::GetDouble(), IRegistry::GetString(), kDefaultHealthTimeout, kDefaultWGSHealthTimeoutSec, kDefaultWGSProcessorHealthCommand, kDefaultWGSProcessorsEnabled, kWGSProcessorSection, m_HealthTimeoutSec, m_WGSHealthTimeoutSec, m_WGSProcessorHealthCommand, m_WGSProcessorsEnabled, PSG_ERROR, CPSGAlerts::Register(), and registry.

Referenced by Read().

Member Data Documentation

◆ m_AllowIOTest

bool SPubseqGatewaySettings::m_AllowIOTest

Definition at line 97 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), and x_ReadDebugSection().

◆ m_AllowProcessorTiming

bool SPubseqGatewaySettings::m_AllowProcessorTiming

Definition at line 98 of file settings.hpp.

Referenced by CPubseqGatewayApp::ParseArgs(), and x_ReadDebugSection().

◆ m_AuthCommands

vector<string> SPubseqGatewaySettings::m_AuthCommands

Definition at line 106 of file settings.hpp.

Referenced by IsAuthProtectedCommand(), and x_ReadAdminSection().

◆ m_AuthToken

string SPubseqGatewaySettings::m_AuthToken

Definition at line 105 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_CheckAuthorization(), and x_ReadAdminSection().

◆ m_BioseqInfoDbFile

string SPubseqGatewaySettings::m_BioseqInfoDbFile

Definition at line 88 of file settings.hpp.

Referenced by CPubseqGatewayApp::OpenCache(), Validate(), and x_ReadLmdbCacheSection().

◆ m_BlobPropDbFile

string SPubseqGatewaySettings::m_BlobPropDbFile

Definition at line 89 of file settings.hpp.

Referenced by CPubseqGatewayApp::OpenCache(), Validate(), and x_ReadLmdbCacheSection().

◆ m_CassandraHealthTimeoutSec

double SPubseqGatewaySettings::m_CassandraHealthTimeoutSec

Definition at line 121 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_InitialzeZEndPointData(), and x_ReadCassandraProcessorSection().

◆ m_CassandraProcessorHealthCommand

string SPubseqGatewaySettings::m_CassandraProcessorHealthCommand

Definition at line 120 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_InitialzeZEndPointData(), and x_ReadCassandraProcessorSection().

◆ m_CassandraProcessorsEnabled

bool SPubseqGatewaySettings::m_CassandraProcessorsEnabled

Definition at line 119 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetCassandraProcessorsEnabled(), and x_ReadCassandraProcessorSection().

◆ m_CDDHealthTimeoutSec

double SPubseqGatewaySettings::m_CDDHealthTimeoutSec

Definition at line 130 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_InitialzeZEndPointData(), and x_ReadCDDProcessorSection().

◆ m_CDDProcessorHealthCommand

string SPubseqGatewaySettings::m_CDDProcessorHealthCommand

Definition at line 129 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_InitialzeZEndPointData(), and x_ReadCDDProcessorSection().

◆ m_CDDProcessorsEnabled

bool SPubseqGatewaySettings::m_CDDProcessorsEnabled

Definition at line 128 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetCDDProcessorsEnabled(), and x_ReadCDDProcessorSection().

◆ m_ConfigurationDomain

string SPubseqGatewaySettings::m_ConfigurationDomain

Definition at line 70 of file settings.hpp.

Referenced by CPubseqGatewayApp::OpenCass(), and x_ReadServerSection().

◆ m_CriticalDataSources

vector<string> SPubseqGatewaySettings::m_CriticalDataSources

Definition at line 115 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_NeedReadyZCheckPerform(), and x_ReadHealthSection().

◆ m_EnableHugeIPG

bool SPubseqGatewaySettings::m_EnableHugeIPG

Definition at line 102 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), and x_ReadIPGSection().

◆ m_ExcludeCacheInactivityPurge

unsigned int SPubseqGatewaySettings::m_ExcludeCacheInactivityPurge

Definition at line 94 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadAutoExcludeSection().

◆ m_ExcludeCacheMaxSize

unsigned int SPubseqGatewaySettings::m_ExcludeCacheMaxSize

Definition at line 92 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadAutoExcludeSection().

◆ m_ExcludeCachePurgePercentage

unsigned int SPubseqGatewaySettings::m_ExcludeCachePurgePercentage

Definition at line 93 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadAutoExcludeSection().

◆ m_HealthTimeoutSec

double SPubseqGatewaySettings::m_HealthTimeoutSec

Definition at line 116 of file settings.hpp.

Referenced by x_ReadCassandraProcessorSection(), x_ReadCDDProcessorSection(), x_ReadHealthSection(), x_ReadLMDBProcessorSection(), x_ReadSNPProcessorSection(), and x_ReadWGSProcessorSection().

◆ m_HttpMaxBacklog

size_t SPubseqGatewaySettings::m_HttpMaxBacklog

Definition at line 71 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetHttpMaxBacklog(), Validate(), and x_ReadServerSection().

◆ m_HttpMaxRunning

size_t SPubseqGatewaySettings::m_HttpMaxRunning

Definition at line 72 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetHttpMaxRunning(), Validate(), and x_ReadServerSection().

◆ m_HttpPort

unsigned short SPubseqGatewaySettings::m_HttpPort

Definition at line 55 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), CPubseqGatewayApp::x_InitialzeZEndPointData(), x_ReadServerSection(), and CPubseqGatewayApp::x_SelfZEndPointCheckImpl().

◆ m_HttpWorkers

unsigned short SPubseqGatewaySettings::m_HttpWorkers

Definition at line 56 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadServerSection().

◆ m_IdToNameAndDescription

map<string, tuple<string, string> > SPubseqGatewaySettings::m_IdToNameAndDescription

Definition at line 144 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetIdToNameAndDescriptionMap(), CPubseqGatewayApp::Run(), and x_ReadCountersSection().

◆ m_IPGPageSize

int SPubseqGatewaySettings::m_IPGPageSize

Definition at line 101 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetPageSize(), Validate(), and x_ReadIPGSection().

◆ m_ListenerBacklog

unsigned int SPubseqGatewaySettings::m_ListenerBacklog

Definition at line 57 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadServerSection().

◆ m_LMDBHealthTimeoutSec

double SPubseqGatewaySettings::m_LMDBHealthTimeoutSec

Definition at line 125 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_InitialzeZEndPointData(), and x_ReadLMDBProcessorSection().

◆ m_LMDBProcessorHealthCommand

string SPubseqGatewaySettings::m_LMDBProcessorHealthCommand

Definition at line 124 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_InitialzeZEndPointData(), and x_ReadLMDBProcessorSection().

◆ m_Log

bool SPubseqGatewaySettings::m_Log

Definition at line 62 of file settings.hpp.

Referenced by CPubseqGatewayApp::ParseArgs(), and x_ReadServerSection().

◆ m_LogSamplingRatio

size_t SPubseqGatewaySettings::m_LogSamplingRatio

Definition at line 73 of file settings.hpp.

Referenced by Validate(), CPubseqGatewayApp::x_CreateRequestContext(), and x_ReadServerSection().

◆ m_LogTimingThreshold

size_t SPubseqGatewaySettings::m_LogTimingThreshold

Definition at line 74 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadServerSection().

◆ m_MaxHops

int SPubseqGatewaySettings::m_MaxHops

Definition at line 63 of file settings.hpp.

Referenced by Validate(), CPubseqGatewayApp::x_GetHops(), and x_ReadServerSection().

◆ m_MaxRetries

unsigned int SPubseqGatewaySettings::m_MaxRetries

Definition at line 60 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetCassandraMaxRetries(), Validate(), and x_ReadServerSection().

◆ m_MaxStatValue

unsigned long SPubseqGatewaySettings::m_MaxStatValue

Definition at line 79 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadStatisticsSection().

◆ m_MinStatValue

unsigned long SPubseqGatewaySettings::m_MinStatValue

Definition at line 78 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadStatisticsSection().

◆ m_MyNCBIErrorCacheBackOffMs

size_t SPubseqGatewaySettings::m_MyNCBIErrorCacheBackOffMs

Definition at line 151 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), and x_ReadMyNCBISection().

◆ m_MyNCBIErrorCacheSize

size_t SPubseqGatewaySettings::m_MyNCBIErrorCacheSize

Definition at line 150 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), and x_ReadMyNCBISection().

◆ m_MyNCBIHttpProxy

string SPubseqGatewaySettings::m_MyNCBIHttpProxy

Definition at line 153 of file settings.hpp.

Referenced by CPubseqGatewayApp::CreateMyNCBIFactory(), and x_ReadMyNCBISection().

◆ m_MyNCBINotFoundCacheExpirationSec

size_t SPubseqGatewaySettings::m_MyNCBINotFoundCacheExpirationSec

Definition at line 149 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), and x_ReadMyNCBISection().

◆ m_MyNCBINotFoundCacheSize

size_t SPubseqGatewaySettings::m_MyNCBINotFoundCacheSize

Definition at line 148 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), and x_ReadMyNCBISection().

◆ m_MyNCBIOKCacheSize

size_t SPubseqGatewaySettings::m_MyNCBIOKCacheSize

Definition at line 147 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), and x_ReadMyNCBISection().

◆ m_MyNCBIResolveTimeoutMs

size_t SPubseqGatewaySettings::m_MyNCBIResolveTimeoutMs

Definition at line 155 of file settings.hpp.

Referenced by CPubseqGatewayApp::CreateMyNCBIFactory(), Validate(), and x_ReadMyNCBISection().

◆ m_MyNCBITimeoutMs

size_t SPubseqGatewaySettings::m_MyNCBITimeoutMs

Definition at line 154 of file settings.hpp.

Referenced by CPubseqGatewayApp::CreateMyNCBIFactory(), Validate(), and x_ReadMyNCBISection().

◆ m_MyNCBIURL

string SPubseqGatewaySettings::m_MyNCBIURL

Definition at line 152 of file settings.hpp.

Referenced by CPubseqGatewayApp::CreateMyNCBIFactory(), Validate(), and x_ReadMyNCBISection().

◆ m_NStatBins

unsigned long SPubseqGatewaySettings::m_NStatBins

Definition at line 80 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadStatisticsSection().

◆ m_OnlyForProcessor

string SPubseqGatewaySettings::m_OnlyForProcessor

Definition at line 83 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), and x_ReadStatisticsSection().

◆ m_ProcessorMaxConcurrency

size_t SPubseqGatewaySettings::m_ProcessorMaxConcurrency

Definition at line 66 of file settings.hpp.

Referenced by GetProcessorMaxConcurrency(), Validate(), and x_ReadServerSection().

◆ m_RequestTimeoutSec

double SPubseqGatewaySettings::m_RequestTimeoutSec

Definition at line 65 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadServerSection().

◆ m_ResendTimeoutSec

double SPubseqGatewaySettings::m_ResendTimeoutSec

Definition at line 64 of file settings.hpp.

Referenced by Validate(), CPubseqGatewayApp::x_GetResendTimeout(), and x_ReadServerSection().

◆ m_RootKeyspace

string SPubseqGatewaySettings::m_RootKeyspace

Definition at line 69 of file settings.hpp.

Referenced by CPubseqGatewayApp::OpenCass(), and x_ReadServerSection().

◆ m_SendBlobIfSmall

unsigned long SPubseqGatewaySettings::m_SendBlobIfSmall

Definition at line 61 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetSendBlobIfSmall(), and x_ReadServerSection().

◆ m_ShutdownIfTooManyOpenFD

size_t SPubseqGatewaySettings::m_ShutdownIfTooManyOpenFD

Definition at line 68 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetShutdownIfTooManyOpenFD(), and x_ReadServerSection().

◆ m_Si2csiDbFile

string SPubseqGatewaySettings::m_Si2csiDbFile

Definition at line 87 of file settings.hpp.

Referenced by CPubseqGatewayApp::OpenCache(), Validate(), and x_ReadLmdbCacheSection().

◆ m_SmallBlobSize

unsigned long SPubseqGatewaySettings::m_SmallBlobSize

Definition at line 77 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), and x_ReadStatisticsSection().

◆ m_SNPHealthTimeoutSec

double SPubseqGatewaySettings::m_SNPHealthTimeoutSec

Definition at line 140 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_InitialzeZEndPointData(), and x_ReadSNPProcessorSection().

◆ m_SNPProcessorHealthCommand

string SPubseqGatewaySettings::m_SNPProcessorHealthCommand

Definition at line 139 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_InitialzeZEndPointData(), and x_ReadSNPProcessorSection().

◆ m_SNPProcessorsEnabled

bool SPubseqGatewaySettings::m_SNPProcessorsEnabled

Definition at line 138 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetSNPProcessorsEnabled(), and x_ReadSNPProcessorSection().

◆ m_SplitInfoBlobCacheSize

size_t SPubseqGatewaySettings::m_SplitInfoBlobCacheSize

Definition at line 67 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), and x_ReadServerSection().

◆ m_SSLCertFile

string SPubseqGatewaySettings::m_SSLCertFile

Definition at line 110 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetSSLCertFile(), Validate(), and x_ReadSSLSection().

◆ m_SSLCiphers

string SPubseqGatewaySettings::m_SSLCiphers

Definition at line 112 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetSSLCiphers(), Validate(), and x_ReadSSLSection().

◆ m_SSLEnable

bool SPubseqGatewaySettings::m_SSLEnable

Definition at line 109 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetSSLEnable(), Validate(), CPubseqGatewayApp::x_InitialzeZEndPointData(), CPubseqGatewayApp::x_InitSSL(), x_ReadServerSection(), and x_ReadSSLSection().

◆ m_SSLKeyFile

string SPubseqGatewaySettings::m_SSLKeyFile

Definition at line 111 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetSSLKeyFile(), Validate(), and x_ReadSSLSection().

◆ m_StatScaleType

string SPubseqGatewaySettings::m_StatScaleType

Definition at line 81 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadStatisticsSection().

◆ m_TcpMaxConn

unsigned short SPubseqGatewaySettings::m_TcpMaxConn

Definition at line 58 of file settings.hpp.

Referenced by CPubseqGatewayApp::Run(), Validate(), and x_ReadServerSection().

◆ m_TickSpan

unsigned long SPubseqGatewaySettings::m_TickSpan

Definition at line 82 of file settings.hpp.

Referenced by CPubseqGatewayApp::OnStatistics(), CPubseqGatewayApp::Run(), Validate(), and x_ReadStatisticsSection().

◆ m_TimeoutMs

unsigned int SPubseqGatewaySettings::m_TimeoutMs

Definition at line 59 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetCassandraTimeout(), Validate(), and x_ReadServerSection().

◆ m_WGSHealthTimeoutSec

double SPubseqGatewaySettings::m_WGSHealthTimeoutSec

Definition at line 135 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_InitialzeZEndPointData(), and x_ReadWGSProcessorSection().

◆ m_WGSProcessorHealthCommand

string SPubseqGatewaySettings::m_WGSProcessorHealthCommand

Definition at line 134 of file settings.hpp.

Referenced by CPubseqGatewayApp::x_InitialzeZEndPointData(), and x_ReadWGSProcessorSection().

◆ m_WGSProcessorsEnabled

bool SPubseqGatewaySettings::m_WGSProcessorsEnabled

Definition at line 133 of file settings.hpp.

Referenced by CPubseqGatewayApp::GetWGSProcessorsEnabled(), and x_ReadWGSProcessorSection().

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

src/app/pubseq_gateway/server/settings.hpp
src/app/pubseq_gateway/server/settings.cpp

Public Member Functions

Public Attributes

Private Member Functions

Detailed Description

Constructor & Destructor Documentation

◆ SPubseqGatewaySettings()

◆ ~SPubseqGatewaySettings()

Member Function Documentation

◆ GetProcessorMaxConcurrency()

◆ IsAuthProtectedCommand()

◆ Read()

◆ Validate()

◆ x_GetDataSize()

◆ x_ReadAdminSection()

◆ x_ReadAutoExcludeSection()

◆ x_ReadCassandraProcessorSection()

◆ x_ReadCDDProcessorSection()

◆ x_ReadCountersSection()

◆ x_ReadDebugSection()

◆ x_ReadHealthSection()

◆ x_ReadIPGSection()

◆ x_ReadLmdbCacheSection()

◆ x_ReadLMDBProcessorSection()

◆ x_ReadMyNCBISection()

◆ x_ReadServerSection()

◆ x_ReadSNPProcessorSection()

◆ x_ReadSSLSection()

◆ x_ReadStatisticsSection()

◆ x_ReadWGSProcessorSection()

Member Data Documentation

◆ m_AllowIOTest

◆ m_AllowProcessorTiming

◆ m_AuthCommands

◆ m_AuthToken

◆ m_BioseqInfoDbFile

◆ m_BlobPropDbFile

◆ m_CassandraHealthTimeoutSec

◆ m_CassandraProcessorHealthCommand

◆ m_CassandraProcessorsEnabled

◆ m_CDDHealthTimeoutSec

◆ m_CDDProcessorHealthCommand

◆ m_CDDProcessorsEnabled

◆ m_ConfigurationDomain

◆ m_CriticalDataSources

◆ m_EnableHugeIPG

◆ m_ExcludeCacheInactivityPurge

◆ m_ExcludeCacheMaxSize

◆ m_ExcludeCachePurgePercentage

◆ m_HealthTimeoutSec

◆ m_HttpMaxBacklog

◆ m_HttpMaxRunning

◆ m_HttpPort

◆ m_HttpWorkers

◆ m_IdToNameAndDescription

◆ m_IPGPageSize

◆ m_ListenerBacklog

◆ m_LMDBHealthTimeoutSec

◆ m_LMDBProcessorHealthCommand

◆ m_Log

◆ m_LogSamplingRatio

◆ m_LogTimingThreshold

◆ m_MaxHops

◆ m_MaxRetries

◆ m_MaxStatValue

◆ m_MinStatValue

◆ m_MyNCBIErrorCacheBackOffMs

◆ m_MyNCBIErrorCacheSize

◆ m_MyNCBIHttpProxy

◆ m_MyNCBINotFoundCacheExpirationSec

◆ m_MyNCBINotFoundCacheSize

◆ m_MyNCBIOKCacheSize

◆ m_MyNCBIResolveTimeoutMs

◆ m_MyNCBITimeoutMs

◆ m_MyNCBIURL

◆ m_NStatBins

◆ m_OnlyForProcessor

◆ m_ProcessorMaxConcurrency

◆ m_RequestTimeoutSec

◆ m_ResendTimeoutSec

◆ m_RootKeyspace