pappso::GrpMapPeptideToSubGroupSet Class Reference

#include <grpmappeptidetosubgroupset.h>

Public Member Functions
	GrpMapPeptideToSubGroupSet ()
	GrpMapPeptideToSubGroupSet (const GrpMapPeptideToSubGroupSet &other)
	~GrpMapPeptideToSubGroupSet ()
void	getSubGroupSet (const GrpPeptideSet &peptide_set_in, GrpSubGroupSet &impacted_subgroup_set) const
	get all subgroups concerned by a list of peptides More...
void	remove (GrpSubGroup *p_remove_sub_group)
	removes in the map all references of the group to remove (p_remove_sub_group) More...
void	add (GrpSubGroup *p_add_sub_group)
	add in the map all peptides of the subgroup to add More...
bool	hasSpecificPeptide (const GrpSubGroup *get) const
	tells if this subgroup contains a specific peptide More...
void	check (std::list< GrpSubGroupSp > &m_grpSubGroupSpList) const
	check function only usefull for testing purpose More...
unsigned int	size () const
const QString	printInfos () const

Private Attributes
std::map< GrpPeptide *, GrpSubGroupSet >	m_mapPeptideToSubGroupSet

Detailed Description

Definition at line 36 of file grpmappeptidetosubgroupset.h.

Constructor & Destructor Documentation

GrpMapPeptideToSubGroupSet() [1/2]

pappso::GrpMapPeptideToSubGroupSet::GrpMapPeptideToSubGroupSet

(

)

Definition at line 33 of file grpmappeptidetosubgroupset.cpp.

{
}

GrpMapPeptideToSubGroupSet() [2/2]

pappso::GrpMapPeptideToSubGroupSet::GrpMapPeptideToSubGroupSet

(

const GrpMapPeptideToSubGroupSet &

other

)

Definition at line 41 of file grpmappeptidetosubgroupset.cpp.

  : m_mapPeptideToSubGroupSet(other.m_mapPeptideToSubGroupSet)
{
}

~GrpMapPeptideToSubGroupSet()

pappso::GrpMapPeptideToSubGroupSet::~GrpMapPeptideToSubGroupSet

(

)

Definition at line 37 of file grpmappeptidetosubgroupset.cpp.

{
}

Member Function Documentation

add()

void pappso::GrpMapPeptideToSubGroupSet::add

(

GrpSubGroup *

p_add_sub_group

)

add in the map all peptides of the subgroup to add

Definition at line 141 of file grpmappeptidetosubgroupset.cpp.

{
  qDebug()
    << "GrpMapPeptideToSubGroupSet::add begin  m_mapPeptideToSubGroupSet.size()"
    << m_mapPeptideToSubGroupSet.size();
 
 
  const GrpPeptideSet &peptide_set_in = p_add_sub_group->getPeptideSet();
 
  auto it_peptide_end = peptide_set_in.m_peptidePtrList.end();
 
  for(auto it_peptide = peptide_set_in.m_peptidePtrList.begin();
      it_peptide != it_peptide_end;
      it_peptide++)
    {
      std::pair<std::map<GrpPeptide *, GrpSubGroupSet>::iterator, bool> ret =
        m_mapPeptideToSubGroupSet.insert(
          std::pair<GrpPeptide *, GrpSubGroupSet>(*it_peptide,
                                                  GrpSubGroupSet()));
      // if (ret.second==false) { => key already exists
      ret.first->second.add(p_add_sub_group);
    }
 
  qDebug() << "GrpMapPeptideToSubGroupSet::add end";
}

References pappso::GrpSubGroup::getPeptideSet(), m_mapPeptideToSubGroupSet, and pappso::GrpPeptideSet::m_peptidePtrList.

Referenced by pappso::GrpGroup::GrpGroup(), and pappso::GrpGroup::addSubGroupSp().

check()

void pappso::GrpMapPeptideToSubGroupSet::check

(

std::list< GrpSubGroupSp > &

m_grpSubGroupSpList

)

const

check function only usefull for testing purpose

Definition at line 76 of file grpmappeptidetosubgroupset.cpp.

{
  qDebug() << "GrpMapPeptideToSubGroupSet::std begin ";
  GrpMapPeptideToSubGroupSet test(*this);
  qDebug() << "GrpMapPeptideToSubGroupSet::std before test.size() "
           << test.size();
 
  for(auto pair : m_mapPeptideToSubGroupSet)
    {
      qDebug() << "GrpMapPeptideToSubGroupSet::std before peptide "
               << pair.first->getSequence() << " " << pair.first;
    }
 
  for(GrpSubGroupSp &sub_group_sp : m_grpSubGroupSpList)
    {
      test.remove(sub_group_sp.get());
    }
  qDebug() << "GrpMapPeptideToSubGroupSet::std after test.size() "
           << test.size();
 
  qDebug() << "GrpMapPeptideToSubGroupSet::std begin ";
}

References m_mapPeptideToSubGroupSet, remove(), and size().

getSubGroupSet()

void pappso::GrpMapPeptideToSubGroupSet::getSubGroupSet	(	const GrpPeptideSet &	peptide_set_in,
		GrpSubGroupSet &	impacted_subgroup_set
	)		const

get all subgroups concerned by a list of peptides

Definition at line 53 of file grpmappeptidetosubgroupset.cpp.

{
  qDebug() << "GrpMapPeptideToSubGroupSet::getSubGroupSet begin ";
  auto it_peptide_end = peptide_set_in.m_peptidePtrList.end();
  std::map<GrpPeptide *, GrpSubGroupSet>::const_iterator it_map_end =
    m_mapPeptideToSubGroupSet.end();
 
  for(auto it_peptide = peptide_set_in.m_peptidePtrList.begin();
      it_peptide != it_peptide_end;
      it_peptide++)
    {
      std::map<GrpPeptide *, GrpSubGroupSet>::const_iterator it_map =
        m_mapPeptideToSubGroupSet.find(*it_peptide);
      if(it_map != it_map_end)
        {
          impacted_subgroup_set.addAll(it_map->second);
        }
    }
  qDebug() << "GrpMapPeptideToSubGroupSet::getSubGroupSet end ";
}

References pappso::GrpSubGroupSet::addAll(), m_mapPeptideToSubGroupSet, and pappso::GrpPeptideSet::m_peptidePtrList.

Referenced by pappso::GrpGroup::addSubGroupSp(), and pappso::GrpGroup::check().

hasSpecificPeptide()

bool pappso::GrpMapPeptideToSubGroupSet::hasSpecificPeptide

(

const GrpSubGroup *

get

)

const

tells if this subgroup contains a specific peptide

Definition at line 169 of file grpmappeptidetosubgroupset.cpp.

{
  qDebug() << "GrpMapPeptideToSubGroupSet::hasSpecificPeptide begin";
 
  const GrpPeptideSet &peptide_set_in = p_sub_group->getPeptideSet();
 
  auto it_peptide_end = peptide_set_in.m_peptidePtrList.end();
  std::map<GrpPeptide *, GrpSubGroupSet>::const_iterator it_map_end =
    m_mapPeptideToSubGroupSet.end();
 
  for(auto it_peptide = peptide_set_in.m_peptidePtrList.begin();
      it_peptide != it_peptide_end;
      it_peptide++)
    {
      std::map<GrpPeptide *, GrpSubGroupSet>::const_iterator it_map =
        m_mapPeptideToSubGroupSet.find(*it_peptide);
      if(it_map != it_map_end)
        {
          if(it_map->second.size() == 1)
            {
              return true;
            }
        }
      else
        {
          throw PappsoException(
            QObject::tr("hasSpecificPeptide ERROR, peptide %1 from subgroup %2 "
                        "not referenced in GrpMapPeptideToSubGroupSet")
              .arg((*it_peptide)->getSequence())
              .arg(p_sub_group->getFirstAccession()));
        }
    }
 
  qDebug() << "GrpMapPeptideToSubGroupSet::hasSpecificPeptide end";
  return false;
}

References pappso::GrpSubGroup::getFirstAccession(), pappso::GrpSubGroup::getPeptideSet(), m_mapPeptideToSubGroupSet, and pappso::GrpPeptideSet::m_peptidePtrList.

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

printInfos()

const QString pappso::GrpMapPeptideToSubGroupSet::printInfos

(

)

const

Definition at line 208 of file grpmappeptidetosubgroupset.cpp.

{
  QString infos;
  auto itMap    = m_mapPeptideToSubGroupSet.begin();
  auto itMapEnd = m_mapPeptideToSubGroupSet.end();
 
  while(itMap != itMapEnd)
    {
      infos.append(
        itMap->first->getSequence() + " " +
        QString("0x%1").arg(
          (quintptr)itMap->first, QT_POINTER_SIZE * 2, 16, QChar('0')) +
        "\n");
      itMap++;
    }
 
  return infos;
}

References m_mapPeptideToSubGroupSet.

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

remove()

void pappso::GrpMapPeptideToSubGroupSet::remove

(

GrpSubGroup *

p_remove_sub_group

)

removes in the map all references of the group to remove (p_remove_sub_group)

Definition at line 101 of file grpmappeptidetosubgroupset.cpp.

{
  qDebug() << "GrpMapPeptideToSubGroupSet::remove begin "
           << p_remove_sub_group->getFirstAccession();
  // std::list<std::pair<GrpPeptide*, GrpSubGroupSet>>
  // m_mapPeptideToSubGroupSet;
  const GrpPeptideSet &peptide_set_in = p_remove_sub_group->getPeptideSet();
 
  auto it_peptide_end = peptide_set_in.m_peptidePtrList.end();
  std::map<GrpPeptide *, GrpSubGroupSet>::const_iterator it_map_end =
    m_mapPeptideToSubGroupSet.end();
 
  for(auto it_peptide = peptide_set_in.m_peptidePtrList.begin();
      it_peptide != it_peptide_end;
      it_peptide++)
    {
      std::map<GrpPeptide *, GrpSubGroupSet>::iterator it_map =
        m_mapPeptideToSubGroupSet.find(*it_peptide);
      if(it_map != it_map_end)
        {
          it_map->second.remove(p_remove_sub_group);
          if(it_map->second.size() == 0)
            {
              m_mapPeptideToSubGroupSet.erase(it_map);
            }
        }
      else
        {
          throw PappsoException(
            QObject::tr("remove ERROR, peptide %1 from subgroup %2 not "
                        "referenced in GrpMapPeptideToSubGroupSet")
              .arg((*it_peptide)->getSequence())
              .arg(p_remove_sub_group->getFirstAccession()));
        }
    }
 
  qDebug() << "GrpMapPeptideToSubGroupSet::remove end "
           << p_remove_sub_group->getFirstAccession();
}

References pappso::GrpSubGroup::getFirstAccession(), pappso::GrpSubGroup::getPeptideSet(), m_mapPeptideToSubGroupSet, and pappso::GrpPeptideSet::m_peptidePtrList.

Referenced by pappso::GrpGroup::addSubGroupSp(), check(), and pappso::GrpGroup::removeFirstNonInformativeSubGroup().

size()

unsigned int pappso::GrpMapPeptideToSubGroupSet::size

(

)

const

Referenced by check().

Member Data Documentation

m_mapPeptideToSubGroupSet

std::map<GrpPeptide *, GrpSubGroupSet> pappso::GrpMapPeptideToSubGroupSet::m_mapPeptideToSubGroupSet

private

Definition at line 39 of file grpmappeptidetosubgroupset.h.

Referenced by add(), check(), getSubGroupSet(), hasSpecificPeptide(), printInfos(), and remove().

---

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

• pappsomspp/grouping/grpmappeptidetosubgroupset.h
• pappsomspp/grouping/grpmappeptidetosubgroupset.cpp