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NCBI C++ ToolKit: src/gui/widgets/aln_table/aln_table_ds.cpp Source File

( ; align_iter; ++align_iter) {

& align = align_iter.GetOriginalSeq_align();

);

TAlignments::const_iterator end)

(TAlignments::const_iterator iter = begin; iter != end; ++iter) {

(proxy.

->IsSetScore()) {

& score = **score_iter;

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(aln.

.empty()) {

(aln.

.empty()) {

(aln.

->GetNamedScore(it->second, f_score)) {

(

)f_score;

(aln.

->GetNamedScore(it->second, i_score)) {

(

)i_score;

( ; id_iter; ++id_iter) {

(

)id_set.

();

range = proxy.

->GetSeqRange(1);

);

User-defined methods of the data storage class.

int x_GetNumSeqs(const SAlignment &proxy) const

void x_GetStartStop(const SAlignment &proxy) const

TScoreColIndices m_ColIndices

virtual wxString GetColumnType(int aColIx) const

Tries to extract actual type from row 0 value if it exists.

void Add(objects::CScope &scope, const objects::CSeq_align &aln)

void x_GetSeqLength(const SAlignment &proxy) const

TScoreColNames m_ColNames

virtual int GetNumColumns() const

Returns the number of columns in the model.

void x_AddAlign(objects::CScope &scope, const objects::CSeq_align &align)

void x_GetMismatchCount(const SAlignment &proxy) const

TAlignments m_Alignments

the alignments we represent

const SAlignment & GetData(size_t row) const

access a given row's data

virtual wxString GetColumnName(int aColIx) const

Returns a default name for the column using spreadsheet conventions: A, B, C, ...

vector< SAlignment > TAlignments

void x_GetGapCount(const SAlignment &proxy) const

const TAlignments & GetAlignments(void) const

virtual wxVariant GetValueAt(int i, int j) const

virtual int GetNumRows() const

Returns the number of rows in the model.

TSeqPos GetAlignLength(const CSeq_align &align, bool ungapped=false)

Compute the length of the alignment (= length of all segments, gaps + aligned)

int GetGapCount(const CSeq_align &align)

Compute the number of gaps in the alignment.

int GetMismatchCount(CScope &scope, const CSeq_align &align)

Compute the number of mismatches in the alignment.

Template class for iteration on objects of class C (non-medifiable version)

virtual void x_FireDataChanged()

container_type::const_iterator const_iterator

container_type::iterator iterator

const_iterator end() const

const_iterator find(const key_type &key) const

iterator_bool insert(const value_type &val)

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

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define NCBI_THROW(exception_class, err_code, message)

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

static void GetLabel(const CObject &obj, string *label, ELabelType type=eDefault)

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.

void Reset(void)

Reset reference object.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

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

Convert int to string.

TTo GetTo(void) const

Get the To member data.

TFrom GetFrom(void) const

Get the From member data.

bool IsStr(void) const

Check if variant Str is selected.

const TStr & GetStr(void) const

Get the variant data.

TId GetId(void) const

Get the variant data.

vector< CRef< CScore > > TScore

bool IsDisc(void) const

Check if variant Disc is selected.

list< CRef< CSeq_align > > Tdata

const TDisc & GetDisc(void) const

Get the variant data.

const TId & GetId(void) const

Get the Id member data.

const Tdata & Get(void) const

Get the member data.

const TSegs & GetSegs(void) const

Get the Segs member data.

bool IsAlign(void) const

Check if variant Align is selected.

list< CRef< CSeq_align > > TAlign

const TAlign & GetAlign(void) const

Get the variant data.

const TData & GetData(void) const

Get the Data member data.

#define row(bind, expected)

the alignment we store with its parsed data

CRef< objects::CScope > scope

CConstRef< objects::CSeq_align > align

wxString ToWxString(const string &s)

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