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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/asn__cache_8cpp_source.html below:

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

vector<string> db_paths;

db_paths.push_back(db_path);

kSubcacheMask =

;

(

& item: items ) {

( item->IsDir() ) {

path = item->GetPath();

(

(main_fname).Exists() ) {

db_paths.push_back(path);

( db_paths.empty() ) {

+ db_path);

( 1 == db_paths.size() ) {

time_t& this_timestamp)

->GetIdInfo(idh, this_gi, this_timestamp);

& sequence_length,

->GetIdInfo(

, accession, gi, timestamp, sequence_length, tax_id);

vector<CSeq_id_Handle>& all_ids,

->GetSeqIds(

, all_ids, cheap_only);

->GetBlob(idh, blob);

->GetMultipleBlobs(

, blobs);

->GetEntry(idh);

->GetMultipleEntries(

);

vector<CAsnIndex::SIndexInfo> &

)

->GetMultipleIndexEntries(

,

);

User-defined methods of the data storage class.

User-defined methods of the data storage class.

Contains the class definiton for CAsnCache, the main client class for accessing the ASN cache data.

Berkeley BDB file cursor.

void EnumIndex(IAsnCacheStore::TEnumIndexCallback cb) const

bool GetBlob(const objects::CSeq_id_Handle &id, objects::CCache_blob &blob)

Return the cache blob, packed and uninterpreted.

size_t GetGiCount() const

void EnumSeqIds(IAsnCacheStore::TEnumSeqidCallback cb) const

vector< unsigned char > TBuffer

Type used to hold raw (unformatted) blob data.

vector< CRef< objects::CSeq_entry > > GetMultipleEntries(const objects::CSeq_id_Handle &id)

bool GetIdInfo(const objects::CSeq_id_Handle &id, CAsnIndex::TGi &gi, time_t &timestamp)

Return the GI and timestamp for a given seq_id.

bool GetMultipleRaw(const objects::CSeq_id_Handle &id, vector< TBuffer > &buffer)

bool GetRaw(const objects::CSeq_id_Handle &id, TBuffer &buffer)

Return the raw blob in an unformatted buffer.

bool GetIndexEntry(const objects::CSeq_id_Handle &id, CAsnIndex::SIndexInfo &info)

Get the full ASN cache index entry.

CRef< objects::CSeq_entry > GetEntry(const objects::CSeq_id_Handle &id)

Return a blob as a CSeq_entry object.

bool GetMultipleIndexEntries(const objects::CSeq_id_Handle &id, vector< CAsnIndex::SIndexInfo > &info)

bool GetMultipleBlobs(const objects::CSeq_id_Handle &id, vector< CRef< objects::CCache_blob > > &blob)

CAsnCache(const CAsnCache &)=delete

bool GetSeqIds(const objects::CSeq_id_Handle &id, vector< objects::CSeq_id_Handle > &all_ids, bool cheap_only=true)

Return the set of seq-ids associated with a given ID.

std::unique_ptr< IAsnCacheStore > m_Store

std::function< void(string, uint32_t, uint64_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t, uint32_t)> TEnumIndexCallback

std::function< void(string, uint32_t, uint64_t, uint32_t)> TEnumSeqidCallback

@ eFollowLinks

Follow symbolic links.

#define NCBI_THROW(exception_class, err_code, message)

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

static string NormalizePath(const string &path, EFollowLinks follow_links=eIgnoreLinks)

Normalize a path.

TEntries GetEntries(const string &mask=kEmptyStr, TGetEntriesFlags flags=0) const

Get directory entries based on the specified "mask".

static string CreateAbsolutePath(const string &path, ERelativeToWhat rtw=eRelativeToCwd)

Get an absolute path from some, possibly relative, path.

@ fIgnoreRecursive

Suppress "self recursive" elements (the directories "." and "..").

uint32_t Uint4

4-byte (32-bit) unsigned integer

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

Defines classes: CDirEntry, CFile, CDir, CSymLink, CMemoryFile, CFileUtil, CFileLock,...

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