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NCBI C++ ToolKit: src/objtools/data_loaders/cdd/cdd_loader/cdd_loader.cpp Source File

: m_Compress(

),

cdd && *

< *cdd;

cdd && *

== *cdd;

params.m_ServiceName,

params.m_PoolSoftLimit,

params.m_PoolAgeLimit,

params.m_ExcludeNucleotides)

(!blob.

)

ret;

#define DEFAULT_CDD_POOL_AGE_LIMIT

#define DEFAULT_CDD_POOL_SOFT_LIMIT

#define DEFAULT_CDD_SERVICE_NAME

#define DEFAULT_CDD_EXCLUDE_NUCLEOTIDES

static const char * kCDDLoaderParamName

static const char * kCDDLoaderName

void DataLoaders_Register_CDD(void)

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

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

const string kDataLoader_Cdd_DriverName("cdd")

static CSafeStatic< CRevoker > s_Revoker(CSafeStaticLifeSpan(CSafeStaticLifeSpan::eLifeLevel_AppMain, CSafeStaticLifeSpan::eLifeSpan_Long))

CRef< CID2_Blob_Id > m_Id2BlobId

TSatKey GetSatKey(void) const

bool operator==(const CBlobId &blob_id) const

string ToString(void) const

Get string representation of blob id.

bool operator<(const CBlobId &blob_id) const

TSubSat GetSubSat(void) const

TVersion GetVersion(void) const

const CID2_Blob_Id & Get(void) const

SCDDBlob GetBlobBySeq_ids(const TSeq_idSet &ids)

CCDDDataLoader_Impl(const CCDDDataLoader::SLoaderParams &params)

CCDDClientPool m_ClientPool

TTSE_LockSet GetBlobBySeq_ids(const TSeq_idSet &ids, CDataSource &ds, TProcessedNAs *processed_nas)

~CCDDDataLoader_Impl(void)

TTSE_LockSet GetOrphanAnnotRecordsNA(const CSeq_id_Handle &idh, const SAnnotSelector *sel, TProcessedNAs *processed_nas) override

new Get*AnnotRecords() methods

static string GetLoaderNameFromArgs(void)

CObjectManager::TPriority GetDefaultPriority(void) const override

CRef< CCDDDataLoader_Impl > m_Impl

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...

static TRegisterLoaderInfo RegisterInObjectManager(CObjectManager &om, CObjectManager::EIsDefault is_default=CObjectManager::eNonDefault, CObjectManager::TPriority priority=CObjectManager::kPriority_NotSet)

virtual CDataLoader * CreateAndRegister(CObjectManager &om, const TPluginManagerParamTree *params) const

virtual ~CCDD_DataLoaderCF(void)

CObjectManager::TPriority GetPriority(const TPluginManagerParamTree *params) const

CObjectManager::EIsDefault GetIsDefault(const TPluginManagerParamTree *params) const

bool ValidParams(const TPluginManagerParamTree *params) const

CTSE_LoadLock GetTSE_LoadLock(const TBlobId &blob_id)

bool IsDataLoaderMatches(CDataLoader &loader) const

@ eLifeLevel_AppMain

Destroyed in CNcbiApplication::AppMain, if possible.

void SetName(const CAnnotName &name)

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

bool IsLoaded(void) const

CTempString implements a light-weight string on top of a storage buffer whose lifetime management is ...

definition of a Culling tree

iterator_bool insert(const value_type &val)

Include a standard set of the NCBI C++ Toolkit most basic headers.

virtual void Assign(const CSerialObject &source, ESerialRecursionMode how=eRecursive)

Set object to copy of another one.

int GetInt(const string &driver_name, const string &param_name, EErrAction on_error, int default_value, const list< string > *synonyms=NULL)

Utility function to get an integer element of parameter tree Throws an exception when mandatory param...

string GetString(const string &driver_name, const string &param_name, EErrAction on_error, const string &default_value, const list< string > *synonyms=NULL)

Utility function to get an element of parameter tree Throws an exception when mandatory parameter is ...

bool GetBool(const string &driver_name, const string &param_name, EErrAction on_error, bool default_value, const list< string > *synonyms=NULL)

Utility function to get an integer element of parameter tree Throws an exception when mandatory param...

@ eErr_NoThrow

Return default value on error.

TLoader * GetLoader(void) const

Get pointer to the loader.

static CRef< CObjectManager > GetInstance(void)

Return the existing object manager or create one.

void RevokeDataLoaders(IDataLoaderFilter &filter)

Revoke data loaders by filter, even if they were still used.

static void SetProcessedNA(const string &na, TProcessedNAs *processed_nas)

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.

TRegisterInfo GetRegisterInfo(void)

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.

@ kPriority_Replace

Default priority for replacement loaders.

void Reset(void)

Reset reference object.

static void NCBI_EntryPointImpl(TDriverInfoList &info_list, EEntryPointRequest method)

Entry point implementation.

list< SDriverInfo > TDriverInfoList

List of driver information.

EEntryPointRequest

Actions performed by the entry point.

#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 TTreeType * FindSubNode(const TKeyType &key) const

Non recursive linear scan of all subnodes, with key comparison.

const TBlob_id & GetBlob_id(void) const

Get the Blob_id member data.

TSet & SetSet(void)

Select the variant.

TSeq_set & SetSeq_set(void)

Assign a value to Seq_set data member.

#define NCBI_ID2PROC_CDD_PARAM_SERVICE_NAME

#define NCBI_ID2PROC_CDD_PARAM_POOL_AGE_LIMIT

#define NCBI_ID2PROC_CDD_PARAM_POOL_SOFT_LIMIT

#define NCBI_ID2PROC_CDD_PARAM_COMPRESS_DATA

#define NCBI_ID2PROC_CDD_PARAM_EXCLUDE_NUCLEOTIDES

Helper classes and templates to implement plugins.

CRef< objects::CObjectManager > om

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