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

AsnText(

& obj)

AsnCompare(

& obj1,

& obj2)

str1 = AsnText(obj1);

str2 = AsnText(obj2);

str1.compare(str2);

(

.IsOther() ) {

(1,

);

( name.empty() ) {

( name != acc ) {

(2,

<<

(4,

<<

name<<

<<

<<

<<ver);

& s = desc.

();

( name.empty() ) {

( name != s ) {

( !

.IsStr() ||

.GetStr() !=

) {

( zoom_level < 0 ) {

( zoom_level != level ) {

(8,

<<

name<<

<<zoom_level<<

<<level);

( name.empty() ) {

(9,

);

( zoom_level >= 0 ) {

( name.empty() ) {

(10,

);

( name.empty() ) {

(

&& 0);

(

&& 0);

( zoom_level > 0 ) {

<<

<< name <<

;

<<

<< (it-

.begin()) <<

<< **it;

: m_ObjectType(

::C_Data::e_Ftable),

m_Size(

->GetAsnSize(obj), ratio)

: m_ObjectType(

::C_Data::e_Graph),

m_Size(

->GetAsnSize(obj), ratio)

: m_ObjectType(

::C_Data::e_Align),

m_Size(

->GetAsnSize(obj), ratio)

: m_ObjectType(

::C_Data::e_Seq_table),

m_Size(

->GetAsnSize(obj), ratio)

(

= AsnCompare(f1, f2) ) {

(

= AsnCompare(a1, a2) ) {

(

= AsnCompare(g1, g2) ) {

(

= AsnCompare(t1, t2) ) {

( CSeq_descr::Tdata::const_iterator i1(d1.begin()), i2(d2.begin());

i1 != d1.end() || i2 != d2.end(); ++i1, ++i2 ) {

(

= (i1 != d1.end()) - (i2 != d2.end()) ) {

(

= (*i1)->Which() - (*i2)->Which() ) {

( seq_length <= 10000 ) {

User-defined methods of the data storage class.

User-defined methods of the data storage class.

const string & GetName(void) const

CConstRef< CObject > m_Object

CAnnotObject_SplitInfo(void)

TAnnotPriority GetPriority(void) const

int Compare(const CAnnotObject_SplitInfo &other) const

TAnnotPriority m_Priority

CBioseq_SplitInfo(const CBioseq &bioseq, const SSplitterParams &params)

TAnnotPriority GetPriority(void) const

CNcbiOstream & Print(CNcbiOstream &out) const

void Add(const CAnnotObject_SplitInfo &obj)

CNcbiOstrstreamToString class helps convert CNcbiOstrstream to a string Sample usage:

bool IsBioseq_set(void) const

bool IsBioseq(void) const

const TBioseqId & GetBioseqId(void) const

ESubtype GetSubtype(void) const

CNcbiOstream & Print(CNcbiOstream &out) const

vector< CRef< CLocObjects_SplitInfo > > TObjects

TAnnotPriority m_TopPriority

void SetSeq_annot(const CSeq_annot &annot, const SSplitterParams &params, const CBlobSplitterImpl &impl)

CConstRef< CSeq_annot > m_Src_annot

void Add(const CAnnotObject_SplitInfo &obj)

static CAnnotName GetName(const CSeq_annot &annot)

TAnnotPriority m_NamePriority

CSeq_annot_SplitInfo(void)

TAnnotPriority GetPriority(void) const

int Compare(const CSeq_annot_SplitInfo &other) const

static size_t CountAnnotObjects(const CSeq_annot &annot)

TAnnotPriority m_Priority

CConstRef< CSeq_data > m_Data

TRange GetRange(void) const

TAnnotPriority GetPriority(void) const

void SetSeq_data(const CPlaceId &place_id, const TRange &range, TSeqPos seq_length, const CSeq_data &data, const SSplitterParams &params)

CSeq_descr_SplitInfo(const CPlaceId &place_id, TSeqPos seq_length, const CSeq_descr &descr, const SSplitterParams &params)

TAnnotPriority m_Priority

CConstRef< CSeq_descr > m_Descr

int Compare(const CSeq_descr_SplitInfo &other) const

TAnnotPriority GetPriority(void) const

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

namespace ncbi::objects::

TAnnotPriority GetPriority(void) const

TAnnotPriority m_Priority

CSeq_hist_SplitInfo(const CPlaceId &place_id, const CSeq_hist &hist, const SSplitterParams &params)

void Add(const CSeq_data_SplitInfo &data)

int Compare(const CSeqsRange &other) const

void Add(const CSeq_id_Handle &id, const COneSeqRange &loc)

const_iterator begin(void) const

pair< TDataSize, TDataSize > TSizeRatio

TSizeRatio GetExactRatio(void) const

int Compare(const CSize &size) const

CConstRef< CUser_field > GetFieldRef(const string &str, const string &delim=".", NStr::ECase use_case=NStr::eCase) const

std::ofstream out("events_result.xml")

main entry point for tests

static const char * str(char *buf, int n)

unsigned int TSeqPos

Type for sequence locations and lengths.

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define ERR_POST_X(err_subcode, message)

Error posting with default error code and given error subcode.

#define MSerial_AsnText

I/O stream manipulators –.

static CSeq_id_Handle GetHandle(const CSeq_id &id)

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

void Reset(void)

Reset reference object.

static TThisType GetWhole(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.

IO_PREFIX::ostream CNcbiOstream

Portable alias for ostream.

NCBI_NS_STD::string::size_type SIZE_TYPE

static int StringToInt(const CTempString str, TStringToNumFlags flags=0, int base=10)

Convert string to int.

static string IntToString(int value, TNumToStringFlags flags=0, int base=10)

Convert int to string.

const TData & GetData(void) const

Get the Data member data.

bool IsInt(void) const

Check if variant Int is selected.

TInt GetInt(void) const

Get the variant data.

const TType & GetType(void) const

Get the Type member data.

const TData & GetData(void) const

Get the Data member data.

list< CRef< CSeqdesc > > Tdata

const Tdata & Get(void) const

Get the member data.

const TGraph & GetGraph(void) const

Get the variant data.

bool IsSetAssembly(void) const

how was this assembled? Check if a value has been assigned to Assembly data member.

list< CRef< CSeq_graph > > TGraph

TVersion GetVersion(void) const

Get the Version member data.

list< CRef< CAnnot_id > > TId

const TAccession & GetAccession(void) const

Get the Accession member data.

const TId & GetId(void) const

Get the Id member data.

list< CRef< CSeq_align > > TAlign

const Tdata & Get(void) const

Get the member data.

bool IsSetVersion(void) const

Check if a value has been assigned to Version data member.

const TUser & GetUser(void) const

Get the variant data.

E_Choice Which(void) const

Which variant is currently selected.

const TDesc & GetDesc(void) const

Get the Desc member data.

const TAssembly & GetAssembly(void) const

Get the Assembly member data.

list< CRef< CSeq_id > > TId

bool IsSetDesc(void) const

used only for stand alone Seq-annots Check if a value has been assigned to Desc data member.

bool IsSetAccession(void) const

Check if a value has been assigned to Accession data member.

const TAlign & GetAlign(void) const

Get the variant data.

bool IsSetId(void) const

Check if a value has been assigned to Id data member.

const TSeq_table & GetSeq_table(void) const

Get the variant data.

const TId & GetId(void) const

Get the Id member data.

const TFtable & GetFtable(void) const

Get the variant data.

list< CRef< CSeq_feat > > TFtable

const TData & GetData(void) const

Get the Data member data.

const TName & GetName(void) const

Get the variant data.

E_Choice Which(void) const

Which variant is currently selected.

list< CRef< CAnnotdesc > > Tdata

@ e_Name

a short name for this collection

@ e_User

user defined object

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

const string version

version string

#define NCBI_ANNOT_TRACK_ZOOM_LEVEL_SUFFIX

static CSafeStatic< CAsnSizer > s_Sizer

NCBI_DEFINE_ERR_SUBCODE_X(10)

@ eAnnotPriority_skeleton

@ eAnnotPriority_landmark

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