Client for ASN.1-based protocol defined in file gencoll_client.asn

Search Toolkit Book for CGenomicCollectionsService

#include <objects/genomecoll/genomic_collections_cli.hpp>

Inheritance diagram for CGenomicCollectionsService:

Collaboration diagram for CGenomicCollectionsService:

Classes
struct	SAssemblyMode

Public Member Functions
	CGenomicCollectionsService (const string &cache_file="")

	CGenomicCollectionsService (const CArgs &args)

	~CGenomicCollectionsService ()

CRef< CGC_Assembly >	GetAssembly (const string &acc, const string &mode)

CRef< CGC_Assembly >	GetAssembly (int releaseId, const string &mode)

string	ValidateChrType (const string &chrType, const string &chrLoc)

CRef< CGCClient_AssemblyInfo >	FindOneAssemblyBySequences (const string &sequence_acc, int filter, CGCClient_GetAssemblyBySequenceRequest::ESort sort=CGCClient_GetAssemblyBySequenceRequest::eSort_default)
	Find assembly by sequence accession. More...

CRef< CGCClient_AssemblySequenceInfo >	FindOneAssemblyBySequences (const list< string > &sequence_acc, int filter, CGCClient_GetAssemblyBySequenceRequest::ESort sort=CGCClient_GetAssemblyBySequenceRequest::eSort_default, bool with_roles=false)
	Find assembly by sequence accessions. More...

CRef< CGCClient_AssembliesForSequences >	FindAssembliesBySequences (const string &sequence_acc, int filter, CGCClient_GetAssemblyBySequenceRequest::ESort sort=CGCClient_GetAssemblyBySequenceRequest::eSort_default, bool with_roles=false)
	Find assemblies by sequence accession. More...

CRef< CGCClient_AssembliesForSequences >	FindAssembliesBySequences (const list< string > &sequence_acc, int filter, CGCClient_GetAssemblyBySequenceRequest::ESort sort=CGCClient_GetAssemblyBySequenceRequest::eSort_default, bool with_roles=false)
	Find assemblies by sequence accessions. More...

CRef< CGCClient_EquivalentAssemblies >	GetEquivalentAssemblies (const string &acc, int equivalency)

Public Member Functions inherited from CGenomicCollectionsService_Base
	CGenomicCollectionsService_Base (void)

virtual	~CGenomicCollectionsService_Base (void)

virtual void	Ask (const TRequest &request, TReply &reply)

virtual void	Ask (const TRequest &request, TReply &reply, TReplyChoice::E_Choice wanted)

virtual string	AskGet_chrtype_valid (const CGCClient_ValidateChrTypeLocRequest &req, TReply *reply=0)

virtual CRef< CGCClient_EquivalentAssemblies >	AskGet_equivalent_assemblies (const CGCClient_GetEquivalentAssembliesRequest &req, TReply *reply=0)

virtual vector< char >	AskGet_assembly_blob (const CGCClient_GetAssemblyBlobRequest &req, TReply *reply=0)

virtual CRef< CGCClient_AssembliesForSequences >	AskGet_assembly_by_sequence (const CGCClient_GetAssemblyBySequenceRequest &req, TReply *reply=0)

Public Member Functions inherited from CRPCClient< CGCClientRequest, CGCClientResponse >
	CRPCClient (const string &service=kEmptyStr)

	CRPCClient (const string &service, ESerialDataFormat format)

	CRPCClient (const string &service, ESerialDataFormat format, unsigned int try_limit)

virtual	~CRPCClient (void)

virtual void	WriteRequest (CObjectOStream &out, const CGCClientRequest &request)

virtual void	ReadReply (CObjectIStream &in, CGCClientResponse &reply)

EIO_Status	SetTimeout (const STimeout *timeout, EIO_Event direction=eIO_ReadWrite)

const STimeout *	GetTimeout (EIO_Event direction=eIO_Read) const

EIO_Status	AsyncConnect (void *handle_buf, size_t handle_size)

Public Member Functions inherited from CObject
	CObject (void)
	Constructor. More...

	CObject (const CObject &src)
	Copy constructor. More...

virtual	~CObject (void)
	Destructor. More...

CObject &	operator= (const CObject &src) THROWS_NONE
	Assignment operator. More...

bool	CanBeDeleted (void) const THROWS_NONE
	Check if object can be deleted. More...

bool	IsAllocatedInPool (void) const THROWS_NONE
	Check if object is allocated in memory pool (not system heap) More...

bool	Referenced (void) const THROWS_NONE
	Check if object is referenced. More...

bool	ReferencedOnlyOnce (void) const THROWS_NONE
	Check if object is referenced only once. More...

void	AddReference (void) const
	Add reference to object. More...

void	RemoveReference (void) const
	Remove reference to object. More...

void	ReleaseReference (void) const
	Remove reference without deleting object. More...

virtual void	DoNotDeleteThisObject (void)
	Mark this object as not allocated in heap – do not delete this object. More...

virtual void	DoDeleteThisObject (void)
	Mark this object as allocated in heap – object can be deleted. More...

void *	operator new (size_t size)
	Define new operator for memory allocation. More...

void *	operator new[] (size_t size)
	Define new[] operator for 'array' memory allocation. More...

void	operator delete (void *ptr)
	Define delete operator for memory deallocation. More...

void	operator delete[] (void *ptr)
	Define delete[] operator for memory deallocation. More...

void *	operator new (size_t size, void *place)
	Define new operator. More...

void	operator delete (void ptr, void place)
	Define delete operator. More...

void *	operator new (size_t size, CObjectMemoryPool *place)
	Define new operator using memory pool. More...

void	operator delete (void ptr, CObjectMemoryPool place)
	Define delete operator. More...

virtual void	DebugDump (CDebugDumpContext ddc, unsigned int depth) const
	Define method for dumping debug information. More...

Public Member Functions inherited from CDebugDumpable
	CDebugDumpable (void)

virtual	~CDebugDumpable (void)

void	DebugDumpText (ostream &out, const string &bundle, unsigned int depth) const

void	DebugDumpFormat (CDebugDumpFormatter &ddf, const string &bundle, unsigned int depth) const

void	DumpToConsole (void) const

Public Member Functions inherited from CRPCClient_Base
	CRPCClient_Base (const string &service, ESerialDataFormat format)

	CRPCClient_Base (const string &service, ESerialDataFormat format, unsigned int try_limit)

virtual	~CRPCClient_Base (void)

void	Connect (void)

void	Disconnect (void)

void	Reset (void)

void	SetArgs (const string &args)
	Set additional connection arguments. More...

void	SetArgs (const CUrlArgs &args)

const string &	GetArgs (void) const
	Get additional connection arguments. More...

const string &	GetService (void) const

void	SetService (const string &service)

ESerialDataFormat	GetFormat (void) const

void	SetFormat (ESerialDataFormat fmt)

unsigned int	GetTryLimit (void) const
	Get number of request attempts. More...

void	SetTryLimit (unsigned int n)

unsigned int	GetRetryLimit (void) const

void	SetRetryLimit (unsigned int n)

const CTimeSpan	GetRetryDelay (void) const
	Get retry delay. More...

void	SetRetryDelay (const CTimeSpan &ts)

void	SetCanceledCallback (const ICanceled *canceled)
	Set request canceler. More...

bool	IsCanceled (void) const

Static Public Member Functions
static void	AddArguments (CArgDescriptions &arg_desc)

Static Public Member Functions inherited from CObject
static NCBI_XNCBI_EXPORT void	ThrowNullPointerException (void)
	Define method to throw null pointer exception. More...

static NCBI_XNCBI_EXPORT void	ThrowNullPointerException (const type_info &type)

static EAllocFillMode	GetAllocFillMode (void)

static void	SetAllocFillMode (EAllocFillMode mode)

static void	SetAllocFillMode (const string &value)
	Set mode from configuration parameter value. More...

Static Public Member Functions inherited from CDebugDumpable
static void	EnableDebugDump (bool on)

Private Member Functions
	CGenomicCollectionsService (const CGenomicCollectionsService &value)

CGenomicCollectionsService &	operator= (const CGenomicCollectionsService &value)

CRef< CGCClient_AssembliesForSequences >	x_FindAssembliesBySequences (const list< string > &sequence_acc, int filter, CGCClient_GetAssemblyBySequenceRequest::ESort sort, bool top_only, bool with_roles)

void	x_ConfigureConnection ()

void	x_ConfigureCache (const string &cache_file)

Private Attributes
string	m_CacheFile

unique_ptr< CSQLITE_Connection >	m_CacheConn

Additional Inherited Members
Public Types inherited from CGenomicCollectionsService_Base
typedef CGCClientRequest	TRequest

typedef CGCClientResponse	TReply

typedef TRequest	TRequestChoice

typedef TReply	TReplyChoice

Public Types inherited from CObject
enum	EAllocFillMode { eAllocFillNone = 1 , eAllocFillZero , eAllocFillPattern }
	Control filling of newly allocated memory. More...

typedef CObjectCounterLocker	TLockerType
	Default locker type for CRef. More...

typedef atomic< Uint8 >	TCounter
	Counter type is CAtomiCounter. More...

typedef Uint8	TCount
	Alias for value type of counter. More...

Static Public Attributes inherited from CObject
static const TCount	eCounterBitsCanBeDeleted = 1 << 0
	Define possible object states. More...

static const TCount	eCounterBitsInPlainHeap = 1 << 1
	Heap signature was found. More...

static const TCount	eCounterBitsPlaceMask
	Mask for 'in heap' state flags. More...

static const int	eCounterStep = 1 << 2
	Skip over the "in heap" bits. More...

static const TCount	eCounterValid = TCount(1) << (sizeof(TCount) * 8 - 2)
	Minimal value for valid objects (reference counter is zero) Must be a single bit value. More...

static const TCount	eCounterStateMask
	Valid object, and object in heap. More...

Protected Member Functions inherited from CRPCClient< CGCClientRequest, CGCClientResponse >
virtual string	GetAffinity (const CGCClientRequest &) const

virtual void	x_WriteRequest (CObjectOStream &out, const CSerialObject &request) override

virtual void	x_ReadReply (CObjectIStream &in, CSerialObject &reply) override

virtual string	x_GetAffinity (const CSerialObject &request) const override

virtual void	x_Connect (void) override
	These run with m_Mutex already acquired. More...

void	x_ConnectURL (const string &url)
	Connect to a URL. More...

Protected Member Functions inherited from CObject
virtual void	DeleteThis (void)
	Virtual method "deleting" this object. More...

Protected Member Functions inherited from CRPCClient_Base
void	SetAffinity (const string &affinity)

virtual void	x_Disconnect (void)
	Disconnect as cleanly as possible. More...

void	x_SetStream (CNcbiIostream *stream)

void	x_Ask (const CSerialObject &request, CSerialObject &reply)

virtual bool	x_ShouldRetry (unsigned int tries)

CTimeSpan	x_GetRetryDelay (double max_delay) const

Protected Member Functions inherited from CConnIniter
	CConnIniter (void)

Static Protected Member Functions inherited from CRPCClient< CGCClientRequest, CGCClientResponse >
static EHTTP_HeaderParse	sx_ParseHeader (const char http_header, void user_data, int server_error)

static bool	sx_IsSpecial (const STimeout *timeout)

Static Protected Member Functions inherited from CRPCClient_Base
static const char *	GetContentTypeHeader (ESerialDataFormat format)

Protected Attributes inherited from CRPCClient< CGCClientRequest, CGCClientResponse >
const STimeout *	m_Timeout
	Cloned if not special. More...

Protected Attributes inherited from CRPCClient_Base
string	m_Service
	Used by default Connect(). More...

string	m_Args

unique_ptr< CNcbiIostream >	m_Stream

unique_ptr< CObjectIStream >	m_In

unique_ptr< CObjectOStream >	m_Out

string	m_Affinity

unsigned int	m_TryLimit

CHttpRetryContext	m_RetryCtx

CConstIRef< ICanceled >	m_Canceler

Detailed Description

Definition at line 73 of file genomic_collections_cli.hpp.

Constructor & Destructor Documentation

◆ CGenomicCollectionsService() [1/3]

CGenomicCollectionsService::CGenomicCollectionsService ( const string & cache_file = "" )

Definition at line 75 of file genomic_collections_cli.cpp.

References x_ConfigureCache(), and x_ConfigureConnection().

◆ CGenomicCollectionsService() [2/3]

CGenomicCollectionsService::CGenomicCollectionsService ( const CArgs & args )

Definition at line 84 of file genomic_collections_cli.cpp.

References CArgs::Exist(), x_ConfigureCache(), and x_ConfigureConnection().

◆ ~CGenomicCollectionsService()

CGenomicCollectionsService::~CGenomicCollectionsService ( )

Definition at line 109 of file genomic_collections_cli.cpp.

References CSQLITE_Global::Finalize(), m_CacheConn, m_CacheFile, and NULL.

◆ CGenomicCollectionsService() [3/3]

CGenomicCollectionsService::CGenomicCollectionsService ( const CGenomicCollectionsService & value )

private

Member Function Documentation

◆ AddArguments()

void CGenomicCollectionsService::AddArguments ( CArgDescriptions & arg_desc )

static

Definition at line 355 of file genomic_collections_cli.cpp.

References CArgDescriptions::AddOptionalKey(), CArgDescriptions::eString, and CArgDescriptions::SetCurrentGroup().

Referenced by CClientGenomicCollectionsSvcApplication::Init().

◆ FindAssembliesBySequences() [1/2]

CRef< CGCClient_AssembliesForSequences > CGenomicCollectionsService::FindAssembliesBySequences	(	const list< string > &	sequence_acc,
		int	filter,
		CGCClient_GetAssemblyBySequenceRequest::ESort	sort = `CGCClient_GetAssemblyBySequenceRequest::eSort_default`,
		bool	with_roles = `false`
	)

Find assemblies by sequence accessions.

Parameters

sequence_acc	Sequence accessions in ACC.VER format
filter	Bitfield, OR-ed combination of eGCClient_GetAssemblyBySequenceFilter_* values: eGCClient_GetAssemblyBySequenceFilter_all - do not filter out anything eGCClient_GetAssemblyBySequenceFilter_latest - look up for latest releases only eGCClient_GetAssemblyBySequenceFilter_major - look up for major releases only eGCClient_GetAssemblyBySequenceFilter_genbank - look up for GenBank releases only eGCClient_GetAssemblyBySequenceFilter_refseq - look up for RefSeq releases only If none of genbank of refseq filters are specified then both GenBank and RefSeq releases will be returned
sort	Assembly ordering: CGCClient_GetAssemblyBySequenceRequest::eSort_default - sort by number of sequences found in assembly, then by reference/representative/other, then by modification date CGCClient_GetAssemblyBySequenceRequest::eSort_latest - sort by number of sequences found in assembly, then latest first, then by reference/representative/other, then by modification date CGCClient_GetAssemblyBySequenceRequest::eSort_major - sort by number of sequences found in assembly, then major first, then by reference/representative/other, then by modification date

Returns: List of found assemblies with related sequences.

Definition at line 274 of file genomic_collections_cli.cpp.

References ct::sort(), and x_FindAssembliesBySequences().

◆ FindAssembliesBySequences() [2/2]

CRef< CGCClient_AssembliesForSequences > CGenomicCollectionsService::FindAssembliesBySequences	(	const string &	sequence_acc,
		int	filter,
		CGCClient_GetAssemblyBySequenceRequest::ESort	sort = `CGCClient_GetAssemblyBySequenceRequest::eSort_default`,
		bool	with_roles = `false`
	)

Find assemblies by sequence accession.

Parameters

sequence_acc	Sequence accession in ACC.VER format
filter	Bitfield, OR-ed combination of eGCClient_GetAssemblyBySequenceFilter_* values: eGCClient_GetAssemblyBySequenceFilter_all - do not filter out anything eGCClient_GetAssemblyBySequenceFilter_latest - look up for latest releases only eGCClient_GetAssemblyBySequenceFilter_major - look up for major releases only eGCClient_GetAssemblyBySequenceFilter_genbank - look up for GenBank releases only eGCClient_GetAssemblyBySequenceFilter_refseq - look up for RefSeq releases only If none of genbank of refseq filters are specified then both GenBank and RefSeq releases will be returned
sort	Assembly ordering: CGCClient_GetAssemblyBySequenceRequest::eSort_default - sort by number of sequences found in assembly, then by reference/representative/other, then by modification date CGCClient_GetAssemblyBySequenceRequest::eSort_latest - sort by number of sequences found in assembly, then latest first, then by reference/representative/other, then by modification date CGCClient_GetAssemblyBySequenceRequest::eSort_major - sort by number of sequences found in assembly, then major first, then by reference/representative/other, then by modification date

Returns: List of found assemblies with related sequences.

Definition at line 269 of file genomic_collections_cli.cpp.

References ct::sort().

Referenced by CClientGenomicCollectionsSvcApplication::RunWithService().

◆ FindOneAssemblyBySequences() [1/2]

CRef< CGCClient_AssemblySequenceInfo > CGenomicCollectionsService::FindOneAssemblyBySequences	(	const list< string > &	sequence_acc,
		int	filter,
		CGCClient_GetAssemblyBySequenceRequest::ESort	sort = `CGCClient_GetAssemblyBySequenceRequest::eSort_default`,
		bool	with_roles = `false`
	)

Find assembly by sequence accessions.

Parameters

sequence_acc	Sequence accessions in ACC.VER format
filter	Bitfield, OR-ed combination of eGCClient_GetAssemblyBySequenceFilter_* values: eGCClient_GetAssemblyBySequenceFilter_all - do not filter out anything eGCClient_GetAssemblyBySequenceFilter_latest - look up for latest releases only eGCClient_GetAssemblyBySequenceFilter_major - look up for major releases only eGCClient_GetAssemblyBySequenceFilter_genbank - look up for GenBank releases only eGCClient_GetAssemblyBySequenceFilter_refseq - look up for RefSeq releases only If none of genbank of refseq filters are specified then both GenBank and RefSeq releases will be returned
sort	Assembly ordering: CGCClient_GetAssemblyBySequenceRequest::eSort_default - sort by number of sequences found in assembly, then by reference/representative/other, then by modification date CGCClient_GetAssemblyBySequenceRequest::eSort_latest - sort by number of sequences found in assembly, then latest first, then by reference/representative/other, then by modification date CGCClient_GetAssemblyBySequenceRequest::eSort_major - sort by number of sequences found in assembly, then major first, then by reference/representative/other, then by modification date

Returns: If assembly is found then return it with list of related sequences. NULL otherwise.

Definition at line 260 of file genomic_collections_cli.cpp.

References ct::sort(), and x_FindAssembliesBySequences().

◆ FindOneAssemblyBySequences() [2/2]

CRef< CGCClient_AssemblyInfo > CGenomicCollectionsService::FindOneAssemblyBySequences	(	const string &	sequence_acc,
		int	filter,
		CGCClient_GetAssemblyBySequenceRequest::ESort	sort = `CGCClient_GetAssemblyBySequenceRequest::eSort_default`
	)

Find assembly by sequence accession.

Parameters

sequence_acc	Sequence accession in ACC.VER format
filter	Bitfield, OR-ed combination of eGCClient_GetAssemblyBySequenceFilter_* values: eGCClient_GetAssemblyBySequenceFilter_all - do not filter out anything eGCClient_GetAssemblyBySequenceFilter_latest - look up for latest releases only eGCClient_GetAssemblyBySequenceFilter_major - look up for major releases only eGCClient_GetAssemblyBySequenceFilter_genbank - look up for GenBank releases only eGCClient_GetAssemblyBySequenceFilter_refseq - look up for RefSeq releases only If none of genbank of refseq filters are specified then both GenBank and RefSeq releases will be returned
sort	Assembly ordering: CGCClient_GetAssemblyBySequenceRequest::eSort_default - sort by number of sequences found in assembly, then by reference/representative/other, then by modification date CGCClient_GetAssemblyBySequenceRequest::eSort_latest - sort by number of sequences found in assembly, then latest first, then by reference/representative/other, then by modification date CGCClient_GetAssemblyBySequenceRequest::eSort_major - sort by number of sequences found in assembly, then major first, then by reference/representative/other, then by modification date

Returns: Assembly if found, NULL otherwise.

Definition at line 253 of file genomic_collections_cli.cpp.

References ct::sort().

Referenced by CClientGenomicCollectionsSvcApplication::RunWithService().

◆ GetAssembly() [1/2]

CRef< CGC_Assembly > CGenomicCollectionsService::GetAssembly	(	const string &	acc,
		const string &	mode
	)

◆ GetAssembly() [2/2]

CRef< CGC_Assembly > CGenomicCollectionsService::GetAssembly	(	int	releaseId,
		const string &	mode
	)

Definition at line 180 of file genomic_collections_cli.cpp.

References CGenomicCollectionsService_Base::AskGet_assembly_blob(), CCachedAssembly::Assembly(), CSQLITE_Statement::Bind(), DIAG_COMPILE_INFO, CRPCClientException::eFailed, ERR_POST, Error(), CException::GetErrCode(), CGCClientResponse_Base::GetSrvr_error(), CSQLITE_Statement::GetString(), CGCClientResponse_Base::IsSrvr_error(), LogRequest(), m_CacheConn, m_CacheFile, CGCClient_GetAssemblyBlobRequest_Base::SetMode(), CGCClient_GetAssemblyBlobRequest_Base::SetRelease_id(), and CSQLITE_Statement::Step().

◆ GetEquivalentAssemblies()

CRef< CGCClient_EquivalentAssemblies > CGenomicCollectionsService::GetEquivalentAssemblies	(	const string &	acc,
		int	equivalency
	)

Definition at line 322 of file genomic_collections_cli.cpp.

References CGenomicCollectionsService_Base::AskGet_equivalent_assemblies(), DIAG_COMPILE_INFO, ERR_POST, eUnknown, CException::GetMsg(), CGCClientResponse_Base::GetSrvr_error(), CGCClientResponse_Base::IsSrvr_error(), LogRequest(), NCBI_THROW, CGCClient_GetEquivalentAssembliesRequest_Base::SetAccession(), CGCClient_GetEquivalentAssembliesRequest_Base::SetEquivalency(), SleepSec(), and Warning().

Referenced by CClientGenomicCollectionsSvcApplication::RunWithService(), and s_GetAssmEquiv().

◆ operator=()

CGenomicCollectionsService& CGenomicCollectionsService::operator= ( const CGenomicCollectionsService & value )

private

◆ ValidateChrType()

string CGenomicCollectionsService::ValidateChrType	(	const string &	chrType,
		const string &	chrLoc
	)

Definition at line 221 of file genomic_collections_cli.cpp.

References CGenomicCollectionsService_Base::AskGet_chrtype_valid(), DIAG_COMPILE_INFO, ERR_POST, eUnknown, CException::GetMsg(), CGCClientResponse_Base::GetSrvr_error(), CGCClientResponse_Base::IsSrvr_error(), LogRequest(), NCBI_THROW, CGCClient_ValidateChrTypeLocRequest_Base::SetLocation(), CGCClient_ValidateChrTypeLocRequest_Base::SetType(), SleepSec(), and Warning().

Referenced by CClientGenomicCollectionsSvcApplication::RunWithService().

◆ x_ConfigureCache()

void CGenomicCollectionsService::x_ConfigureCache ( const string & cache_file )

private

Definition at line 362 of file genomic_collections_cli.cpp.

References CSQLITE_Connection::eAllMT, CSQLITE_Connection::fReadOnly, CSQLITE_Global::Initialize(), m_CacheConn, and m_CacheFile.

Referenced by CGenomicCollectionsService().

◆ x_ConfigureConnection()

void CGenomicCollectionsService::x_ConfigureConnection ( )

private

Definition at line 94 of file genomic_collections_cli.cpp.

References eSerial_AsnText, kTimeout, CRPCClient_Base::SetArgs(), CRPCClient_Base::SetFormat(), CRPCClient_Base::SetRetryLimit(), and CRPCClient< CGCClientRequest, CGCClientResponse >::SetTimeout().

Referenced by CGenomicCollectionsService().

◆ x_FindAssembliesBySequences()

CRef< CGCClient_AssembliesForSequences > CGenomicCollectionsService::x_FindAssembliesBySequences	(	const list< string > &	sequence_acc,
		int	filter,
		CGCClient_GetAssemblyBySequenceRequest::ESort	sort,
		bool	top_only,
		bool	with_roles
	)

private

Member Data Documentation

◆ m_CacheConn

unique_ptr<CSQLITE_Connection> CGenomicCollectionsService::m_CacheConn

private

Definition at line 245 of file genomic_collections_cli.hpp.

Referenced by GetAssembly(), x_ConfigureCache(), and ~CGenomicCollectionsService().

◆ m_CacheFile

string CGenomicCollectionsService::m_CacheFile

private

Definition at line 244 of file genomic_collections_cli.hpp.

Referenced by GetAssembly(), x_ConfigureCache(), and ~CGenomicCollectionsService().

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

include/objects/genomecoll/genomic_collections_cli.hpp
src/objects/genomecoll/genomic_collections_cli.cpp

Classes

Public Member Functions

Static Public Member Functions

Private Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ CGenomicCollectionsService() [1/3]

◆ CGenomicCollectionsService() [2/3]

◆ ~CGenomicCollectionsService()

◆ CGenomicCollectionsService() [3/3]

Member Function Documentation

◆ AddArguments()

◆ FindAssembliesBySequences() [1/2]

◆ FindAssembliesBySequences() [2/2]

◆ FindOneAssemblyBySequences() [1/2]

◆ FindOneAssemblyBySequences() [2/2]

◆ GetAssembly() [1/2]

◆ GetAssembly() [2/2]

◆ GetEquivalentAssemblies()

◆ operator=()

◆ ValidateChrType()

◆ x_ConfigureCache()

◆ x_ConfigureConnection()

◆ x_FindAssembliesBySequences()

Member Data Documentation

◆ m_CacheConn

◆ m_CacheFile