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 54 of file grppeptideset.h.

Constructor & Destructor Documentation

GrpPeptideSet() [1/3]

GrpPeptideSet::GrpPeptideSet

(

)

Definition at line 28 of file grppeptideset.cpp.

{

GrpPeptideSet() [2/3]

GrpPeptideSet::GrpPeptideSet

(

const GrpPeptideSet &

other

)

Definition at line 40 of file grppeptideset.cpp.

  : m_peptidePtrList(other.m_peptidePtrList)
{

GrpPeptideSet() [3/3]

GrpPeptideSet::GrpPeptideSet

(

const GrpProtein *

p_protein

)

Definition at line 31 of file grppeptideset.cpp.

{
  auto it = p_protein->begin();
  while(it != p_protein->end())
    {
      m_peptidePtrList.push_back(*it);
      it++;
    }

~GrpPeptideSet()

GrpPeptideSet::~GrpPeptideSet

(

)

Definition at line 45 of file grppeptideset.cpp.

{

Member Function Documentation

addAll()

void GrpPeptideSet::addAll

(

const GrpPeptideSet &

peptideSet

)

Definition at line 164 of file grppeptideset.cpp.

{
 
  qDebug() << "GrpPeptideSet::addAll begin";
  std::list<GrpPeptide *>::iterator it(m_peptidePtrList.begin());
  std::list<GrpPeptide *>::iterator itEnd(m_peptidePtrList.end());
  std::list<GrpPeptide *>::const_iterator itIn(
    peptideSetIn.m_peptidePtrList.begin());
  std::list<GrpPeptide *>::const_iterator itInEnd(
    peptideSetIn.m_peptidePtrList.end());
 
  while((itIn != itInEnd) && (it != itEnd))
    {
      if(*itIn > *it)
        {
          it++;
          continue;
        }
      if(*itIn < *it)
        {
          it = m_peptidePtrList.insert(it, *itIn);
          it++;
          itIn++;
          continue;
        }
      if(*itIn == *it)
        {
          itIn++;
          it++;
        }
    }
  while(itIn != itInEnd)
    {
      m_peptidePtrList.push_back(*itIn);
      itIn++;
    }
  qDebug() << "GrpPeptideSet::addAll end";

References m_peptidePtrList.

Referenced by pappso::GrpExperiment::addPostGroupingGrpProteinSpRemoval(), pappso::GrpExperiment::addPreGroupingGrpProteinSpRemoval(), pappso::GrpGroup::addSubGroupSp(), and pappso::GrpGroup::GrpGroup().

biggerAndContainsAll()

bool GrpPeptideSet::biggerAndContainsAll

(

const GrpPeptideSet &

peptideSet

)

const

Definition at line 89 of file grppeptideset.cpp.

{
  if(m_peptidePtrList.size() > peptideSetIn.m_peptidePtrList.size())
    {
      return privContainsAll(peptideSetIn);
    }
  return false;

References m_peptidePtrList, and privContainsAll().

contains()

bool GrpPeptideSet::contains

(

const GrpPeptide *

p_grp_peptide

)

const

Definition at line 67 of file grppeptideset.cpp.

{
  if(std::find(m_peptidePtrList.begin(),
               m_peptidePtrList.end(),
               p_grp_peptide) == m_peptidePtrList.end())
    {
      return false;
    }
  return true;

References m_peptidePtrList.

containsAll()

bool GrpPeptideSet::containsAll

(

const GrpPeptideSet &

peptideSet

)

const

Definition at line 79 of file grppeptideset.cpp.

{
  if(m_peptidePtrList.size() < peptideSetIn.m_peptidePtrList.size())
    {
      return false;
    }
  return privContainsAll(peptideSetIn);

References m_peptidePtrList, and privContainsAll().

containsAny()

bool GrpPeptideSet::containsAny

(

const GrpPeptideSet &

peptideSet

)

const

Definition at line 133 of file grppeptideset.cpp.

{
  std::list<GrpPeptide *>::const_iterator innerIt, outerIt, innerEnd, outerEnd;
 
  innerIt  = peptideSetIn.m_peptidePtrList.begin();
  innerEnd = peptideSetIn.m_peptidePtrList.end();
  outerIt  = m_peptidePtrList.begin();
  outerEnd = m_peptidePtrList.end();
 
 
  while((innerIt != innerEnd) && (outerIt != outerEnd))
    {
      if(*innerIt > *outerIt)
        {
          outerIt++;
          continue;
        }
      if(*innerIt < *outerIt)
        {
          innerIt++;
          continue;
        }
      if(*innerIt == *outerIt)
        {
          return true;
        }
    }
  return false;

References m_peptidePtrList.

Referenced by pappso::GrpGroup::containsAny().

getGrpPeptideList()

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

(

)

const

Definition at line 236 of file grppeptideset.cpp.

{
  std::vector<const GrpPeptide *> peptide_list;
  for(GrpPeptide *peptide : m_peptidePtrList)
    {
      peptide_list.push_back(peptide);
    }
  return peptide_list;

References m_peptidePtrList.

numbering()

void GrpPeptideSet::numbering

(

)

Definition at line 205 of file grppeptideset.cpp.

{
  qDebug() << "GrpPeptideSet::numbering begin";
 
  m_peptidePtrList.sort([](GrpPeptide *first, GrpPeptide *second) {
    return ((*first) < (*second));
  });
  unsigned int i = 1;
  for(auto &&p_grp_peptide : m_peptidePtrList)
    {
      p_grp_peptide->setRank(i);
      i++;
    }
 
  qDebug() << "GrpPeptideSet::numbering end";

References m_peptidePtrList.

Referenced by pappso::GrpGroup::numbering().

operator=()

GrpPeptideSet & GrpPeptideSet::operator=

(

const GrpPeptideSet &

other

)

Definition at line 50 of file grppeptideset.cpp.

{
  m_peptidePtrList = other.m_peptidePtrList;
  return *this;

References m_peptidePtrList.

operator==()

bool GrpPeptideSet::operator==

(

const GrpPeptideSet &

other

)

const

Definition at line 57 of file grppeptideset.cpp.

{
  if(m_peptidePtrList.size() != other.m_peptidePtrList.size())
    {
      return false;
    }
  return privContainsAll(other);

References m_peptidePtrList, and privContainsAll().

printInfos()

const QString GrpPeptideSet::printInfos

(

)

const

Definition at line 247 of file grppeptideset.cpp.

{
  QString infos;
  std::list<GrpPeptide *>::const_iterator it(m_peptidePtrList.begin()),
    itEnd(m_peptidePtrList.end());
 
 
  while(it != itEnd)
    {
      infos.append((*it)->getSequence() + " " +
                   QString("0x%1").arg(
                     (quintptr)*it, QT_POINTER_SIZE * 2, 16, QChar('0')) +
                   "\n");
      it++;
    }
 
  return infos;

References m_peptidePtrList.

Referenced by pappso::GrpGroup::check().

privContainsAll()

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

private

Definition at line 99 of file grppeptideset.cpp.

{
  std::list<GrpPeptide *>::const_iterator innerIt, outerIt, innerEnd, outerEnd;
  innerIt  = peptideSetIn.m_peptidePtrList.begin();
  innerEnd = peptideSetIn.m_peptidePtrList.end();
  outerIt  = m_peptidePtrList.begin();
  outerEnd = m_peptidePtrList.end();
 
 
  while((innerIt != innerEnd) && (outerIt != outerEnd))
    {
      if(*innerIt > *outerIt)
        {
          outerIt++;
          continue;
        }
      if(*innerIt < *outerIt)
        {
          return false;
        }
      if(*innerIt == *outerIt)
        {
          innerIt++;
          outerIt++;
        }
    }
  if(innerIt == innerEnd)
    {
      return true;
    }
  return false;

References m_peptidePtrList.

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

setGroupNumber()

void GrpPeptideSet::setGroupNumber

(

unsigned int

i

)

Definition at line 224 of file grppeptideset.cpp.

{
  qDebug() << "GrpPeptideSet::setGroupNumber begin";
  for(auto &&p_grp_peptide : m_peptidePtrList)
    {
      p_grp_peptide->setGroupNumber(i);
    }
 
  qDebug() << "GrpPeptideSet::setGroupNumber end";

References m_peptidePtrList.

Referenced by pappso::GrpGroup::setGroupNumber().

size()

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

inline

Definition at line 73 of file grppeptideset.h.

Referenced by pappso::GrpExperiment::startGrouping().

Friends And Related Function Documentation

GrpMapPeptideToGroup

friend class GrpMapPeptideToGroup

friend

Definition at line 57 of file grppeptideset.h.

GrpMapPeptideToSubGroupSet

friend class GrpMapPeptideToSubGroupSet

friend

Definition at line 56 of file grppeptideset.h.

Member Data Documentation

m_peptidePtrList

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

private

Definition at line 60 of file grppeptideset.h.

Referenced by addAll(), biggerAndContainsAll(), contains(), containsAll(), containsAny(), getGrpPeptideList(), numbering(), operator=(), operator==(), printInfos(), privContainsAll(), setGroupNumber(), and pappso::GrpMapPeptideToSubGroupSet::~GrpMapPeptideToSubGroupSet().

---

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

• pappsomspp/grouping/grppeptideset.h
• pappsomspp/grouping/grppeptideset.cpp