RetroSearch Browse

Home - News ( United States | United Kingdom | Italy | Germany ) - Football scores

Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/masking__delta_8cpp_source.html below:

NCBI C++ ToolKit: src/algo/sequence/masking_delta.cpp Source File

45 return a

.GetFrom() <

.GetFrom() ||

46

(

.GetFrom() ==

.GetFrom() &&

.GetToOpen() <

.GetToOpen());

50 template

typename

Iter,

typename

Less>

51 bool

s_is_sorted(Iter begin, Iter end, Less

less

)

56 for

( Iter

= begin; ++

!= end; begin =

) {

70 if

( !s_is_sorted(mask_ranges.begin(), mask_ranges.end(), ByFrom()) ) {

71

vector<CRange<TSeqPos> > ranges(mask_ranges);

72 sort

(ranges.begin(), ranges.end(), ByFrom());

75 _ASSERT

(s_is_sorted(mask_ranges.begin(), mask_ranges.end(), ByFrom()));

79

seq->

SetId

().push_back(seq_id);

86 TSeqPos

cur_pos = 0, last_pos = 0;

87

vector<CRange<TSeqPos> >::const_iterator mask_it = mask_ranges.begin();

88 while

( cur_pos < seq_length && mask_it != mask_ranges.end() ) {

89 if

( !mask_it->Empty() ) {

90 TSeqPos

mask_start = mask_it->GetFrom();

91 if

( mask_start <= cur_pos ) {

92 TSeqPos

mask_end = mask_it->GetToOpen();

93 if

( mask_end > cur_pos ) {

94

cur_pos = mask_it->GetToOpen();

98 if

( last_pos < cur_pos ) {

101 delta

.Set().push_back(seg);

102

seg->SetLiteral().SetLength(cur_pos-last_pos);

105 delta

.Set().push_back(seg);

107

ref_int.

SetId

().Assign(original_id);

109 if

( mask_start >= seq_length ) {

110

ref_int.

SetTo

(seq_length-1);

111

last_pos = cur_pos = seq_length;

114

ref_int.

SetTo

(mask_start-1);

115

last_pos = cur_pos = mask_start;

120 if

( last_pos < cur_pos ) {

123 delta

.Set().push_back(seg);

124

seg->SetLiteral().SetLength(cur_pos-last_pos);

135

vector<CRange<TSeqPos> > mask_ranges;

137 if

( !original_id ) {

138

original_id = &it.GetSeq_id();

140 else if

( !original_id->

Equals

(it.GetSeq_id()) ) {

143

mask_ranges.push_back(it.GetRange());

155 ConstRef

(&original_id), masking_loc);

Seq-loc iterator class â iterates all intervals from a seq-loc in the correct order.

static DLIST_TYPE *DLIST_NAME() next(DLIST_LIST_TYPE *list, DLIST_TYPE *item)

unsigned int TSeqPos

Type for sequence locations and lengths.

virtual bool Equals(const CSerialObject &object, ESerialRecursionMode how=eRecursive) const

Check if both objects contain the same values.

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

Optimized implementation of CSerialObject::Assign, which is not so efficient.

CConstRef< C > ConstRef(const C *object)

Template function for conversion of const object pointer to CConstRef.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

void SetTo(TTo value)

Assign a value to To data member.

void SetId(TId &value)

Assign a value to Id data member.

void SetFrom(TFrom value)

Assign a value to From data member.

TId & SetId(void)

Assign a value to Id data member.

void SetExt(TExt &value)

Assign a value to Ext data member.

void SetInst(TInst &value)

Assign a value to Inst data member.

void SetRepr(TRepr value)

Assign a value to Repr data member.

void SetLength(TLength value)

Assign a value to Length data member.

void SetMol(TMol value)

Assign a value to Mol data member.

@ eRepr_delta

sequence made by changes (delta) to others

@ eMol_not_set

> cdna = rna

CRef< CBioseq > MakeMaskingBioseq(const CSeq_id &new_id, TSeqPos seq_length, const CSeq_id &original_id, const vector< CRange< TSeqPos > > &mask_ranges)

constexpr auto sort(_Init &&init)

Int4 delta(size_t dimension_, const Int4 *score_)

static bool less(const CSeq_feat *A, const CSeq_feat *B)

RetroSearch is an open source project built by @garambo | Open a GitHub Issue

Search and Browse the WWW like it's 1997 | Search results from DuckDuckGo

HTML: 3.2 | Encoding: UTF-8 | Version: 0.7.4