src/app/asn2asn/asn2asn.cpp File Reference

#include <ncbi_pch.hpp>
#include <corelib/ncbistd.hpp>
#include <corelib/ncbienv.hpp>
#include <corelib/ncbithr.hpp>
#include <corelib/ncbimempool.hpp>
#include <objects/seqset/Seq_entry.hpp>
#include <objects/seqset/Bioseq_set.hpp>
#include <objects/seq/Seq_descr.hpp>
#include <objects/seq/Seqdesc.hpp>
#include <objects/seq/MolInfo.hpp>
#include <objects/seq/Seq_annot.hpp>
#include <objects/seqloc/Seq_id.hpp>
#include <objects/seqfeat/BioSource.hpp>
#include <objects/seqfeat/SubSource.hpp>
#include <objects/seqfeat/Org_ref.hpp>
#include <objects/general/Dbtag.hpp>
#include <objects/general/Object_id.hpp>
#include <objects/seq/Seq_inst.hpp>
#include <memory>
#include "asn2asn.hpp"
#include <corelib/ncbiutil.hpp>
#include <corelib/ncbiargs.hpp>
#include <objects/seq/Bioseq.hpp>
#include <serial/objectio.hpp>
#include <serial/objistr.hpp>
#include <serial/objostr.hpp>
#include <serial/objistrasnb.hpp>
#include <serial/objostrasnb.hpp>
#include <serial/objcopy.hpp>
#include <serial/serial.hpp>
#include <serial/objhook.hpp>
#include <serial/iterator.hpp>
#include <dbapi/driver/exception.hpp>
#include <dbapi/driver/driver_mgr.hpp>
#include <dbapi/driver/drivers.hpp>
#include <corelib/rwstream.hpp>
#include <util/compress/zlib.hpp>

Include dependency graph for asn2asn.cpp:

Go to the source code of this file.

Namespaces
namespace	NCBI_NS_NCBI::objects
Classes
class	CCounter
class	CInc
class	CReadSeqSetHook
class	CWriteSeqSetHook
class	CWriteSeqEntryHook
class	CFormatReadHook
class	CSkipReadClassMemberHook
class	CReadInSkipClassMemberHook< Member >
class	CReadInSkipObjectHook< Object >
class	CAsn2AsnThread
class	CInsertAnnotManager
class	CInsertAnnotHookId
class	CInsertAnnotHookCopy
class	CInsertAnnotHookAnnot
class	CDB_Result_Reader
Defines
#define	CSEQ_ENTRY_REF_CHOICE   0
Typedefs
typedef CSeq_entry	TSeqEntry
Functions
int	main (int argc, char **argv)
static void	SeqEntryProcess (CSeq_entry &entry)
void	MergeAnnot (CObjectIStream &in, CObjectOStream &out, int gi, CObjectIStream &annot_in)
void	MergeFromFile (CObjectIStream &in, CObjectOStream &out, int gi, const string &in_file)
void	MergeExternal (CObjectIStream &in, CObjectOStream &out, int gi, int add_ext_feat)
	DEFINE_STATIC_FAST_MUTEX (s_ArgsMutex)
Variables
END_NCBI_SCOPE	USING_NCBI_SCOPE

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Define Documentation

#define CSEQ_ENTRY_REF_CHOICE   0

Definition at line 58 of file asn2asn.cpp.

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Typedef Documentation

typedef CSeq_entry TSeqEntry

Definition at line 117 of file asn2asn.cpp.

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Function Documentation

DEFINE_STATIC_FAST_MUTEX (  s_ArgsMutex   )

int main (  int  argc, char **  argv )

Definition at line 120 of file asn2asn.cpp. References eDS_Default.

void MergeAnnot (  CObjectIStream &  in, CObjectOStream &  out, int  gi, CObjectIStream &  annot_in )

Definition at line 657 of file asn2asn.cpp. References CObjectStreamCopier::Copy(), eFNP_Allow, CObjectStreamCopier::In(), CObjectStreamCopier::Out(), and out(). Referenced by MergeFromFile().

void MergeExternal (  CObjectIStream &  in, CObjectOStream &  out, int  gi, int  add_ext_feat )

Definition at line 748 of file asn2asn.cpp. References I_DriverContext::Connect(), DBAPI_RegisterDriver_FTDS(), and C_DriverMgr::GetDriverContext().

void MergeFromFile (  CObjectIStream &  in, CObjectOStream &  out, int  gi, const string &  in_file )

Definition at line 696 of file asn2asn.cpp. References eSerial_AsnBinary, MergeAnnot(), CObjectIStream::Open(), and out().

static void SeqEntryProcess (  CSeq_entry &  entry  )  [static]

Definition at line 1068 of file asn2asn.cpp. Referenced by CReadSeqSetHook::ReadClassMember().

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Variable Documentation

END_NCBI_SCOPE USING_NCBI_SCOPE

Definition at line 110 of file asn2asn.cpp.

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