libpappsomspp
Library for mass spectrometry
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Public Member Functions | Private Member Functions | Private Attributes | Friends | List of all members
pappso::GrpPeptideSet Class Reference

#include <grppeptideset.h>

Public Member Functions

 GrpPeptideSet ()
 
 GrpPeptideSet (const GrpPeptideSet &other)
 
 GrpPeptideSet (const GrpProtein *p_protein)
 
 ~GrpPeptideSet ()
 
GrpPeptideSet & operator= (const GrpPeptideSet &other)
 
bool operator== (const GrpPeptideSet &other) const
 
unsigned int size () const
 
bool biggerAndContainsAll (const GrpPeptideSet &peptideSet) const
 
bool contains (const GrpPeptide *p_grp_peptide) const
 
bool containsAll (const GrpPeptideSet &peptideSet) const
 
bool containsAny (const GrpPeptideSet &peptideSet) const
 
void addAll (const GrpPeptideSet &peptideSet)
 
const QString printInfos () const
 
void numbering ()
 
void setGroupNumber (unsigned int i)
 
std::vector< const GrpPeptide * > getGrpPeptideList () const
 

Private Member Functions

bool privContainsAll (const GrpPeptideSet &peptideSetIn) const
 

Private Attributes

std::list< GrpPeptide * > m_peptidePtrList
 

Friends

class GrpMapPeptideToSubGroupSet
 
class GrpMapPeptideToGroup
 

Detailed Description

Definition at line 35 of file grppeptideset.h.

Constructor & Destructor Documentation

◆ GrpPeptideSet() [1/3]

GrpPeptideSet::GrpPeptideSet ( )

Definition at line 29 of file grppeptideset.cpp.

30{
31}

Referenced by GrpPeptideSet(), addAll(), biggerAndContainsAll(), containsAll(), containsAny(), operator=(), operator==(), and privContainsAll().

◆ GrpPeptideSet() [2/3]

GrpPeptideSet::GrpPeptideSet ( const GrpPeptideSet & other)

Definition at line 41 of file grppeptideset.cpp.

42 : m_peptidePtrList(other.m_peptidePtrList)
43{
44}
pappso::GrpPeptideSet::m_peptidePtrList
std::list< GrpPeptide * > m_peptidePtrList
Definition grppeptideset.h:41

References GrpPeptideSet(), and m_peptidePtrList.

◆ GrpPeptideSet() [3/3]

GrpPeptideSet::GrpPeptideSet ( const GrpProtein * p_protein)

Definition at line 32 of file grppeptideset.cpp.

33{
34 auto it = p_protein->begin();
35 while(it != p_protein->end())
36 {
37 m_peptidePtrList.push_back(*it);
38 it++;
39 }
40}
pappso::GrpProtein::end
const_iterator end() const
Definition grpprotein.cpp:62
pappso::GrpProtein::begin
const_iterator begin() const
Definition grpprotein.cpp:57

References pappso::GrpProtein::begin(), pappso::GrpProtein::end(), and m_peptidePtrList.

◆ ~GrpPeptideSet()

GrpPeptideSet::~GrpPeptideSet ( )

Definition at line 46 of file grppeptideset.cpp.

47{
48}

Member Function Documentation

◆ addAll()

void GrpPeptideSet::addAll ( const GrpPeptideSet & peptideSet)

Definition at line 165 of file grppeptideset.cpp.

166{
167
168 qDebug() << "GrpPeptideSet::addAll begin";
169 std::list<GrpPeptide *>::iterator it(m_peptidePtrList.begin());
170 std::list<GrpPeptide *>::iterator itEnd(m_peptidePtrList.end());
171 std::list<GrpPeptide *>::const_iterator itIn(
172 peptideSetIn.m_peptidePtrList.begin());
173 std::list<GrpPeptide *>::const_iterator itInEnd(
174 peptideSetIn.m_peptidePtrList.end());
175
176 while((itIn != itInEnd) && (it != itEnd))
177 {
178 if(*itIn > *it)
179 {
180 it++;
181 continue;
182 }
183 if(*itIn < *it)
184 {
185 it = m_peptidePtrList.insert(it, *itIn);
186 it++;
187 itIn++;
188 continue;
189 }
190 if(*itIn == *it)
191 {
192 itIn++;
193 it++;
194 }
195 }
196 while(itIn != itInEnd)
197 {
198 m_peptidePtrList.push_back(*itIn);
199 itIn++;
200 }
201 qDebug() << "GrpPeptideSet::addAll end";
202}

References GrpPeptideSet(), and m_peptidePtrList.

◆ biggerAndContainsAll()

bool GrpPeptideSet::biggerAndContainsAll ( const GrpPeptideSet & peptideSet) const

Definition at line 90 of file grppeptideset.cpp.

91{
92 if(m_peptidePtrList.size() > peptideSetIn.m_peptidePtrList.size())
93 {
94 return privContainsAll(peptideSetIn);
95 }
96 return false;
97}
pappso::GrpPeptideSet::privContainsAll
bool privContainsAll(const GrpPeptideSet &peptideSetIn) const
Definition grppeptideset.cpp:100

References GrpPeptideSet(), m_peptidePtrList, and privContainsAll().

◆ contains()

bool GrpPeptideSet::contains ( const GrpPeptide * p_grp_peptide) const

Definition at line 68 of file grppeptideset.cpp.

69{
70 if(std::find(m_peptidePtrList.begin(),
71 m_peptidePtrList.end(),
72 p_grp_peptide) == m_peptidePtrList.end())
73 {
74 return false;
75 }
76 return true;
77}

References m_peptidePtrList.

◆ containsAll()

bool GrpPeptideSet::containsAll ( const GrpPeptideSet & peptideSet) const

Definition at line 80 of file grppeptideset.cpp.

81{
82 if(m_peptidePtrList.size() < peptideSetIn.m_peptidePtrList.size())
83 {
84 return false;
85 }
86 return privContainsAll(peptideSetIn);
87}

References GrpPeptideSet(), m_peptidePtrList, and privContainsAll().

◆ containsAny()

bool GrpPeptideSet::containsAny ( const GrpPeptideSet & peptideSet) const

Definition at line 134 of file grppeptideset.cpp.

135{
136 std::list<GrpPeptide *>::const_iterator innerIt, outerIt, innerEnd, outerEnd;
137
138 innerIt = peptideSetIn.m_peptidePtrList.begin();
139 innerEnd = peptideSetIn.m_peptidePtrList.end();
140 outerIt = m_peptidePtrList.begin();
141 outerEnd = m_peptidePtrList.end();
142
143
144 while((innerIt != innerEnd) && (outerIt != outerEnd))
145 {
146 if(*innerIt > *outerIt)
147 {
148 outerIt++;
149 continue;
150 }
151 if(*innerIt < *outerIt)
152 {
153 innerIt++;
154 continue;
155 }
156 if(*innerIt == *outerIt)
157 {
158 return true;
159 }
160 }
161 return false;
162}

References GrpPeptideSet(), and m_peptidePtrList.

◆ getGrpPeptideList()

std::vector< const GrpPeptide * > GrpPeptideSet::getGrpPeptideList ( ) const

Definition at line 237 of file grppeptideset.cpp.

238{
239 std::vector<const GrpPeptide *> peptide_list;
240 for(GrpPeptide *peptide : m_peptidePtrList)
241 {
242 peptide_list.push_back(peptide);
243 }
244 return peptide_list;
245}

References m_peptidePtrList.

◆ numbering()

void GrpPeptideSet::numbering ( )

Definition at line 206 of file grppeptideset.cpp.

207{
208 qDebug() << "GrpPeptideSet::numbering begin";
209
210 m_peptidePtrList.sort([](GrpPeptide *first, GrpPeptide *second) {
211 return ((*first) < (*second));
212 });
213 unsigned int i = 1;
214 for(auto &&p_grp_peptide : m_peptidePtrList)
215 {
216 p_grp_peptide->setRank(i);
217 i++;
218 }
219
220 qDebug() << "GrpPeptideSet::numbering end";
221}

References m_peptidePtrList.

◆ operator=()

GrpPeptideSet & GrpPeptideSet::operator= ( const GrpPeptideSet & other)

Definition at line 51 of file grppeptideset.cpp.

52{
53 m_peptidePtrList = other.m_peptidePtrList;
54 return *this;
55}

References GrpPeptideSet(), and m_peptidePtrList.

◆ operator==()

bool GrpPeptideSet::operator== ( const GrpPeptideSet & other) const

Definition at line 58 of file grppeptideset.cpp.

59{
60 if(m_peptidePtrList.size() != other.m_peptidePtrList.size())
61 {
62 return false;
63 }
64 return privContainsAll(other);
65}

References GrpPeptideSet(), m_peptidePtrList, and privContainsAll().

◆ printInfos()

const QString GrpPeptideSet::printInfos ( ) const

Definition at line 248 of file grppeptideset.cpp.

249{
250 QString infos;
251 std::list<GrpPeptide *>::const_iterator it(m_peptidePtrList.begin()),
252 itEnd(m_peptidePtrList.end());
253
254
255 while(it != itEnd)
256 {
257 infos.append((*it)->getSequence() + " " +
258 QString("0x%1").arg(
259 (quintptr)*it, QT_POINTER_SIZE * 2, 16, QChar('0')) +
260 "\n");
261 it++;
262 }
263
264 return infos;
265}

References m_peptidePtrList.

◆ privContainsAll()

bool GrpPeptideSet::privContainsAll ( const GrpPeptideSet & peptideSetIn) const
private

Definition at line 100 of file grppeptideset.cpp.

101{
102 std::list<GrpPeptide *>::const_iterator innerIt, outerIt, innerEnd, outerEnd;
103 innerIt = peptideSetIn.m_peptidePtrList.begin();
104 innerEnd = peptideSetIn.m_peptidePtrList.end();
105 outerIt = m_peptidePtrList.begin();
106 outerEnd = m_peptidePtrList.end();
107
108
109 while((innerIt != innerEnd) && (outerIt != outerEnd))
110 {
111 if(*innerIt > *outerIt)
112 {
113 outerIt++;
114 continue;
115 }
116 if(*innerIt < *outerIt)
117 {
118 return false;
119 }
120 if(*innerIt == *outerIt)
121 {
122 innerIt++;
123 outerIt++;
124 }
125 }
126 if(innerIt == innerEnd)
127 {
128 return true;
129 }
130 return false;
131}

References GrpPeptideSet(), and m_peptidePtrList.

Referenced by biggerAndContainsAll(), containsAll(), and operator==().

◆ setGroupNumber()

void GrpPeptideSet::setGroupNumber ( unsigned int i)

Definition at line 225 of file grppeptideset.cpp.

226{
227 qDebug() << "GrpPeptideSet::setGroupNumber begin";
228 for(auto &&p_grp_peptide : m_peptidePtrList)
229 {
230 p_grp_peptide->setGroupNumber(i);
231 }
232
233 qDebug() << "GrpPeptideSet::setGroupNumber end";
234}

References m_peptidePtrList.

◆ size()

unsigned int pappso::GrpPeptideSet::size ( ) const
inline

Definition at line 54 of file grppeptideset.h.

55 {
56 return m_peptidePtrList.size();
57 };

References m_peptidePtrList.

Referenced by pappso::GrpSubGroup::operator<().

Friends And Related Symbol Documentation

◆ GrpMapPeptideToGroup

friend class GrpMapPeptideToGroup
friend

Definition at line 38 of file grppeptideset.h.

References GrpMapPeptideToGroup.

Referenced by GrpMapPeptideToGroup.

◆ GrpMapPeptideToSubGroupSet

friend class GrpMapPeptideToSubGroupSet
friend

Definition at line 37 of file grppeptideset.h.

References GrpMapPeptideToSubGroupSet.

Referenced by GrpMapPeptideToSubGroupSet.

Member Data Documentation

◆ m_peptidePtrList

std::list<GrpPeptide *> pappso::GrpPeptideSet::m_peptidePtrList
private

Definition at line 41 of file grppeptideset.h.

Referenced by GrpPeptideSet(), GrpPeptideSet(), pappso::GrpMapPeptideToSubGroupSet::add(), addAll(), biggerAndContainsAll(), contains(), containsAll(), containsAny(), pappso::GrpMapPeptideToGroup::getGroupList(), getGrpPeptideList(), pappso::GrpMapPeptideToSubGroupSet::getSubGroupSet(), pappso::GrpMapPeptideToSubGroupSet::hasSpecificPeptide(), numbering(), operator=(), operator==(), printInfos(), privContainsAll(), pappso::GrpMapPeptideToSubGroupSet::remove(), pappso::GrpMapPeptideToGroup::set(), setGroupNumber(), and size().

The documentation for this class was generated from the following files: