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NCBI C++ ToolKit: src/objmgr/split/blob_splitter_impl.cpp Source File

&

(c);

(

.Split(entry) ) {

( it->second.size() <= 1 ) {

single_ref += it->second.m_Size;

<<

<< it->first.AsString() <<

<<

it->second.m_Size <<

;

<<

<< single_ref <<

;

(

.m_Descr ) {

(

.m_Inst ) {

(

.m_Hist ) {

max_size =

.m_Name.IsNamed()? 5000: 500;

=

.m_Size.GetAsnSize();

add_as_whole =

<= max_size;

( add_as_whole ) {

( desc.

() ) {

=

.m_Size.GetZipSize();

add_as_whole =

<= max_size;

have_skeleton_priority =

;

have_other_priority =

;

have_skeleton_priority =

;

have_other_priority =

;

( have_skeleton_priority && have_other_priority ) {

add_as_whole =

;

( add_as_whole ) {

seq_length =

.m_Location.begin()->second.

GetTotalRange().GetLength();

descr_piece->

().push_back(desc);

.m_SubPieces.push_back(piece_info);

<<

<< it->first <<

<< it->second.m_Size <<

zip_size = it->second.m_Size.GetZipSize();

( sizes.empty() ) {

TSizes::iterator small = sizes.begin();

( small->second <= chunk_it->first ) {

small = sizes.begin();

(7,

<< small->second

<<

<< chunk_it->first

<<

<< new_size);

( sizes.empty() ) {

<<

->second <<

<<

->first);

( !pieces.

() ) {

( !objs.

() ) {

( !objs.

() ) {

main_chunk.

(piece);

(max_iter->second.empty());

pieces.

(max_iter);

( !pieces.

() ) {

( it->second.m_Size > max_size ) {

max_size = it->second.m_Size;

(9,

<<max_iter->first.AsString()<<

sequential =

;

( range.

() ) {

( !prevRange.

() ) {

range != prevRange) ) {

chunk_length = whole_length / chunk_count;

max_piece_length = chunk_length / 2;

vector<SAnnotPiece> pcs;

pcs.push_back(piece);

( !pcs.empty() ) {

<<chunk_count<<

<<whole_length<<

<<chunk_length<<

<<max_piece_length);

( vector<SAnnotPiece>, it, pcs ) {

long_chunk->

(piece);

vector<SAnnotPiece> pcs;

( vector<SAnnotPiece>, it, pcs ) {

(max_iter->second.empty());

pieces.

(max_iter);

( !pieces.

() ) {

( !objs.

() ) {

( !objs.

() ) {

(max_iter->second.empty());

pieces.

(max_iter);

TAnnotPriority GetSeqdescPriority(const CSeqdesc &desc)

NCBI_DEFINE_ERR_SUBCODE_X(12)

void Remove(const SAnnotPiece &piece)

const_iterator begin(void) const

TPiecesById::iterator iterator

SChunkInfo * NextChunk(void)

void AddToSkeleton(CAnnotPieces &pieces)

bool Split(const CSeq_entry &entry)

CRef< CSeq_entry > m_Skeleton

vector< CRef< CAnnotPieces > > TPieces

void MakeID2SObjects(void)

void CopySkeleton(CSeq_entry &dst, const CSeq_entry &src)

void Add(const SAnnotPiece &piece)

bool Split(const CSeq_entry &entry)

vector< CBioseq_SplitInfo > TBioseqs

vector< CRef< CLocObjects_SplitInfo > > TObjects

TAnnotPriority m_Priority

@Seq_descr.hpp User-defined methods of the data storage class.

vector< CSeq_data_SplitInfo > TSeq_data

size_t GetCount(void) const

TDataSize GetZipSize(void) const

TDataSize GetAsnSize(void) const

const_iterator end() const

const_iterator find(const key_type &key) const

unsigned int TSeqPos

Type for sequence locations and lengths.

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define NON_CONST_ITERATE(Type, Var, Cont)

Non constant version of ITERATE macro.

#define LOG_POST_X(err_subcode, message)

static CRef< CObjectManager > GetInstance(void)

Return the existing object manager or create one.

CSeq_entry_Handle AddTopLevelSeqEntry(CSeq_entry &top_entry, TPriority pri=kPriority_Default, EExist action=eExist_Default)

Add seq_entry, default priority is higher than for defaults or loaders Add object to the score with p...

position_type GetLength(void) const

bool IntersectingWith(const TThisType &r) const

static TThisType GetEmpty(void)

#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.

TFrom GetFrom(void) const

Get the From member data.

list< CRef< CSeqdesc > > Tdata

E_Choice Which(void) const

Which variant is currently selected.

Tdata & Set(void)

Assign a value to data member.

@ e_User

user defined object

@ e_Pub

a reference to the publication

@ e_Comment

a more extensive comment

@ e_Molinfo

info on the molecule and techniques

@ e_Title

a title for this sequence

@ e_Source

source of materials, includes Org-ref

unsigned int

A callback function used to compare two keys in a database.

Definition of all error codes used in objmgr libraries (xobjmgr.lib, xobjutil.lib and others).

double value_type

The numeric datatype used by the parser.

const struct ncbi::grid::netcache::search::fields::SIZE size

@ eAnnotPriority_skeleton

static sljit_uw total_size

TAnnotPriority m_Priority

void Add(const SChunkInfo &info)

const_iterator begin(void) const

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