src/objtools/data_loaders/genbank/gbloader.cpp File Reference

#include <ncbi_pch.hpp>
#include <corelib/ncbi_param.hpp>
#include <objtools/data_loaders/genbank/gbloader.hpp>
#include <objtools/data_loaders/genbank/gbloader_params.h>
#include <objtools/data_loaders/genbank/dispatcher.hpp>
#include <objtools/data_loaders/genbank/request_result.hpp>
#include <objtools/data_loaders/genbank/reader_interface.hpp>
#include <objtools/data_loaders/genbank/writer_interface.hpp>
#include <objtools/data_loaders/genbank/readers.hpp>
#include <objtools/data_loaders/genbank/seqref.hpp>
#include <objtools/error_codes.hpp>
#include <objmgr/objmgr_exception.hpp>
#include <objmgr/impl/tse_info.hpp>
#include <objmgr/impl/tse_chunk_info.hpp>
#include <objmgr/impl/bioseq_info.hpp>
#include <objmgr/impl/data_source.hpp>
#include <objmgr/data_loader_factory.hpp>
#include <objmgr/annot_selector.hpp>
#include <objects/seqloc/Seq_id.hpp>
#include <corelib/ncbithr.hpp>
#include <corelib/ncbiapp.hpp>
#include <corelib/plugin_manager_impl.hpp>
#include <corelib/plugin_manager_store.hpp>
#include <algorithm>

Include dependency graph for gbloader.cpp:

Go to the source code of this file.

Classes
class	CGBReaderRequestResult
class	CTimerGuard
class	CGB_DataLoaderCF
Defines
#define	REGISTER_READER_ENTRY_POINTS   1
#define	NCBI_USE_ERRCODE_X   Objtools_GBLoader
#define	GBLOADER_NAME   "GBLOADER"
#define	DEFAULT_ID_GC_SIZE   1000
Typedefs
typedef CGBDataLoader::TParamTree	TParams
Functions
	NCBI_PARAM_DEF_EX (string, GENBANK, LOADER_METHOD, kEmptyStr, eParam_NoThread, GENBANK_LOADER_METHOD)
typedef	NCBI_PARAM_TYPE (GENBANK, LOADER_METHOD) TGenbankLoaderMethod
TParams *	FindSubNode (TParams *params, const string &name)
const TParams *	FindSubNode (const TParams *params, const string &name)
void	DumpParams (const TParams *params, const string &prefix="")
	NCBI_PARAM_DECL (bool, GENBANK, REGISTER_READERS)
	NCBI_PARAM_DEF_EX (bool, GENBANK, REGISTER_READERS, true, eParam_NoThread, GENBANK_REGISTER_READERS)
static bool	s_ForceDriver (const string &names)
	USING_SCOPE (objects)
void	DataLoaders_Register_GenBank (void)
void	NCBI_EntryPoint_DataLoader_GB (CPluginManager< CDataLoader >::TDriverInfoList &info_list, CPluginManager< CDataLoader >::EEntryPointRequest method)
void	NCBI_EntryPoint_xloader_genbank (CPluginManager< objects::CDataLoader >::TDriverInfoList &info_list, CPluginManager< objects::CDataLoader >::EEntryPointRequest method)
Variables
static const char *const	DEFAULT_DRV_ORDER = "ID2:ID1"

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Define Documentation

#define DEFAULT_ID_GC_SIZE   1000

Definition at line 98 of file gbloader.cpp.

#define GBLOADER_NAME   "GBLOADER"

Definition at line 96 of file gbloader.cpp. Referenced by CGBDataLoader::GetLoaderNameFromArgs().

#define NCBI_USE_ERRCODE_X   Objtools_GBLoader

Definition at line 71 of file gbloader.cpp.

#define REGISTER_READER_ENTRY_POINTS   1

Definition at line 43 of file gbloader.cpp.

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Typedef Documentation

typedef CGBDataLoader::TParamTree TParams [static]

Definition at line 316 of file gbloader.cpp.

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Function Documentation

void DataLoaders_Register_GenBank (  void   )

Definition at line 1436 of file gbloader.cpp. References NCBI_EntryPoint_DataLoader_GB().

void @0::DumpParams (  const TParams *  params, const string &  prefix = "" )  [static]

Definition at line 346 of file gbloader.cpp. References NcbiCout, NcbiEndl, and prefix.

const TParams* @0::FindSubNode (  const TParams *  params, const string &  name )  [static]

Definition at line 332 of file gbloader.cpp. References NStr::CompareNocase().

TParams* @0::FindSubNode (  TParams *  params, const string &  name )  [static]

Definition at line 318 of file gbloader.cpp. References NStr::CompareNocase(). Referenced by CGBDataLoader::GetParam(), CGBDataLoader::GetParamsSubnode(), CGBDataLoader::SetParam(), and SPluginParams::SetSubNode().

void NCBI_EntryPoint_DataLoader_GB (  CPluginManager< CDataLoader >::TDriverInfoList &  info_list, CPluginManager< CDataLoader >::EEntryPointRequest  method )

Definition at line 1481 of file gbloader.cpp. References CHostEntryPointImpl< TClassFactory >::NCBI_EntryPointImpl().

void NCBI_EntryPoint_xloader_genbank (  CPluginManager< objects::CDataLoader >::TDriverInfoList &  info_list, CPluginManager< objects::CDataLoader >::EEntryPointRequest  method )

Definition at line 1489 of file gbloader.cpp. References NCBI_EntryPoint_DataLoader_GB().

NCBI_PARAM_DECL (  bool  , GENBANK  , REGISTER_READERS  )

NCBI_PARAM_DEF_EX (  bool  , GENBANK  , REGISTER_READERS  , true  , eParam_NoThread  , GENBANK_REGISTER_READERS  )

NCBI_PARAM_DEF_EX (  string  , GENBANK  , LOADER_METHOD  , kEmptyStr  , eParam_NoThread  , GENBANK_LOADER_METHOD  )

typedef NCBI_PARAM_TYPE (  GENBANK  , LOADER_METHOD  )

static bool s_ForceDriver (  const string &  names  )  [static]

Definition at line 655 of file gbloader.cpp. Referenced by CGBDataLoader::x_CreateReader(), and CGBDataLoader::x_CreateWriter().

USING_SCOPE (  objects   )

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Variable Documentation

const char* const DEFAULT_DRV_ORDER = "ID2:ID1" [static]

Definition at line 93 of file gbloader.cpp.

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