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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/huge__asn__loader_8cpp_source.html below:

NCBI C++ ToolKit: src/objtools/huge_asn/huge_asn_loader.cpp Source File

CLoaderMakerWithReader(

& name,

* reader):

TRegisterInfo GetRegisterInfo(

)

.Set(m_RegisterInfo.GetLoader(), m_RegisterInfo.IsCreated());

cerr <<

<<

<< loading_ids <<

;

info_ptr =

->GetValue();

& loader_name,

CLoaderMakerWithReader maker(loader_name, reader);

maker.GetRegisterInfo();

(

==

)

);

);

(

:

->m_ids)

(std::find(begin(ids), end(ids), newidh) == ids.end())

ids.push_back(newidh);

(

d: descr->

())

* org_ref =

;

(d->GetSource().IsSetOrg())

org_ref = &d->GetSource().GetOrg();

org_ref = &d->GetOrg();

(parent != cont.end())

x_FindTaxId(cont, parent->m_parent_set, parent->m_descr);

User-defined methods of the data storage class.

CTSE_LoadLock GetTSE_LoadLock(const TBlobId &blob_id)

void GetIds(const CSeq_id_Handle &idh, CDataLoader::TIds &ids) override

static TRegisterLoaderInfo RegisterInObjectManager(CObjectManager &om, const string &loader_name, CHugeAsnReader *reader, CObjectManager::EIsDefault is_default=CObjectManager::eNonDefault, CObjectManager::TPriority priority=CObjectManager::kPriority_Default)

TBlobId GetBlobId(const CSeq_id_Handle &idh) override

CRef< CHugeAsnReader > m_reader

TTaxId GetTaxId(const CSeq_id_Handle &idh) override

Request for a taxonomy id of a sequence.

TTSE_LockSet GetRecords(const CSeq_id_Handle &idh, EChoice choice) override

Request from a datasource using handles and ranges instead of seq-loc The TSEs loaded in this call wi...

STypeFound GetSequenceTypeFound(const CSeq_id_Handle &idh) override

TSeqPos GetSequenceLength(const CSeq_id_Handle &idh) override

Request for a length of a sequence.

CSeq_inst::TMol GetSequenceType(const CSeq_id_Handle &idh) override

Request for a type of a sequence Returns CSeq_inst::eMol_not_set if sequence is not known.

CHugeAsnDataLoader(const string &name, CHugeAsnReader *reader)

TTSE_Lock GetBlobById(const TBlobId &blob_id) override

const TBioseqSetInfo * FindTopObject(CConstRef< CSeq_id > seqid) const

auto & GetBiosets() const

virtual CRef< CSeq_entry > LoadSeqEntry(const TBioseqSetInfo &info, eAddTopEntry add_top_entry=eAddTopEntry::yes) const

const TBioseqInfo * FindBioseq(CConstRef< CSeq_id > seqid) const

std::list< TBioseqSetInfo > TBioseqSetList

Data loader exceptions, used by GenBank loader.

void SetSeq_entry(CSeq_entry &entry, CTSE_SetObjectInfo *set_info=0)

bool IsLoaded(void) const

iterator_bool insert(const value_type &val)

unsigned int TSeqPos

Type for sequence locations and lengths.

SStrictId_Tax::TId TTaxId

Taxon id type.

const TSeqPos kInvalidSeqPos

Define special value for invalid sequence position.

#define NCBI_THROW(exception_class, err_code, message)

Generic macro to throw an exception, given the exception class, error code and message string.

#define MSerial_AsnText

I/O stream manipulators –.

CConstRef< CSeq_id > GetSeqId(void) const

static CSeq_id_Handle GetHandle(const CSeq_id &id)

Normal way of getting a handle, works for any seq-id.

string AsString(void) const

vector< CSeq_id_Handle > TIds

CDataSource * GetDataSource(void) const

EChoice

main blob is blob with sequence all other blobs are external and contain external annotations

EIsDefault

Flag defining if the data loader is included in the "default" group.

CBlobIdFor< const void * > CBlobIdPtr

static void RegisterInObjectManager(CObjectManager &om, CLoaderMaker_Base &loader_maker, CObjectManager::EIsDefault is_default, CObjectManager::TPriority priority)

Register the loader only if the name is not yet registered in the object manager.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

const Tdata & Get(void) const

Get the member data.

EMol

molecule class in living organism

@ e_Org

if all from one organism

@ e_Source

source of materials, includes Org-ref

@ eMol_not_set

> cdna = rna

CRef< objects::CObjectManager > om

Better replacement of GetSequenceType(), this method should be defined in data loaders,...

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