libpappsomspp
Library for mass spectrometry
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Public Member Functions | Private Attributes | List of all members
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
 
void remove (GrpSubGroup *p_remove_sub_group)
 removes in the map all references of the group to remove (p_remove_sub_group)
 
void add (GrpSubGroup *p_add_sub_group)
 add in the map all peptides of the subgroup to add
 
bool hasSpecificPeptide (const GrpSubGroup *get) const
 tells if this subgroup contains a specific peptide
 
void check (std::list< GrpSubGroupSp > &m_grpSubGroupSpList) const
 check function only usefull for testing purpose
 
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 35 of file grpmappeptidetosubgroupset.cpp.

36{
37}

Referenced by GrpMapPeptideToSubGroupSet(), and check().

◆ GrpMapPeptideToSubGroupSet() [2/2]

pappso::GrpMapPeptideToSubGroupSet::GrpMapPeptideToSubGroupSet ( const GrpMapPeptideToSubGroupSet & other)

Definition at line 43 of file grpmappeptidetosubgroupset.cpp.

45 : m_mapPeptideToSubGroupSet(other.m_mapPeptideToSubGroupSet)
46{
47}
pappso::GrpMapPeptideToSubGroupSet::m_mapPeptideToSubGroupSet
std::map< GrpPeptide *, GrpSubGroupSet > m_mapPeptideToSubGroupSet
Definition grpmappeptidetosubgroupset.h:39

References GrpMapPeptideToSubGroupSet(), and m_mapPeptideToSubGroupSet.

◆ ~GrpMapPeptideToSubGroupSet()

pappso::GrpMapPeptideToSubGroupSet::~GrpMapPeptideToSubGroupSet ( )

Definition at line 39 of file grpmappeptidetosubgroupset.cpp.

40{
41}

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 143 of file grpmappeptidetosubgroupset.cpp.

144{
145 qDebug()
146 << "GrpMapPeptideToSubGroupSet::add begin m_mapPeptideToSubGroupSet.size()"
147 << m_mapPeptideToSubGroupSet.size();
148
149
150 const GrpPeptideSet &peptide_set_in = p_add_sub_group->getPeptideSet();
151
152 auto it_peptide_end = peptide_set_in.m_peptidePtrList.end();
153
154 for(auto it_peptide = peptide_set_in.m_peptidePtrList.begin();
155 it_peptide != it_peptide_end;
156 it_peptide++)
157 {
158 std::pair<std::map<GrpPeptide *, GrpSubGroupSet>::iterator, bool> ret =
159 m_mapPeptideToSubGroupSet.insert(
160 std::pair<GrpPeptide *, GrpSubGroupSet>(*it_peptide,
161 GrpSubGroupSet()));
162 // if (ret.second==false) { => key already exists
163 ret.first->second.add(p_add_sub_group);
164 }
165
166 qDebug() << "GrpMapPeptideToSubGroupSet::add end";
167}

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

◆ check()

void pappso::GrpMapPeptideToSubGroupSet::check ( std::list< GrpSubGroupSp > & m_grpSubGroupSpList) const

check function only usefull for testing purpose

Definition at line 78 of file grpmappeptidetosubgroupset.cpp.

80{
81 qDebug() << "GrpMapPeptideToSubGroupSet::std begin ";
82 GrpMapPeptideToSubGroupSet test(*this);
83 qDebug() << "GrpMapPeptideToSubGroupSet::std before test.size() "
84 << test.size();
85
86 for(auto pair : m_mapPeptideToSubGroupSet)
87 {
88 qDebug() << "GrpMapPeptideToSubGroupSet::std before peptide "
89 << pair.first->getSequence() << " " << pair.first;
90 }
91
92 for(GrpSubGroupSp &sub_group_sp : m_grpSubGroupSpList)
93 {
94 test.remove(sub_group_sp.get());
95 }
96 qDebug() << "GrpMapPeptideToSubGroupSet::std after test.size() "
97 << test.size();
98
99 qDebug() << "GrpMapPeptideToSubGroupSet::std begin ";
100}
pappso::GrpSubGroupSp
std::shared_ptr< GrpSubGroup > GrpSubGroupSp
Definition grpsubgroup.h:39

References GrpMapPeptideToSubGroupSet(), 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 55 of file grpmappeptidetosubgroupset.cpp.

58{
59 qDebug() << "GrpMapPeptideToSubGroupSet::getSubGroupSet begin ";
60 auto it_peptide_end = peptide_set_in.m_peptidePtrList.end();
61 std::map<GrpPeptide *, GrpSubGroupSet>::const_iterator it_map_end =
62 m_mapPeptideToSubGroupSet.end();
63
64 for(auto it_peptide = peptide_set_in.m_peptidePtrList.begin();
65 it_peptide != it_peptide_end;
66 it_peptide++)
67 {
68 std::map<GrpPeptide *, GrpSubGroupSet>::const_iterator it_map =
69 m_mapPeptideToSubGroupSet.find(*it_peptide);
70 if(it_map != it_map_end)
71 {
72 impacted_subgroup_set.addAll(it_map->second);
73 }
74 }
75 qDebug() << "GrpMapPeptideToSubGroupSet::getSubGroupSet end ";
76}

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

◆ hasSpecificPeptide()

bool pappso::GrpMapPeptideToSubGroupSet::hasSpecificPeptide ( const GrpSubGroup * get) const

tells if this subgroup contains a specific peptide

Definition at line 171 of file grpmappeptidetosubgroupset.cpp.

173{
174 qDebug() << "GrpMapPeptideToSubGroupSet::hasSpecificPeptide begin";
175
176 const GrpPeptideSet &peptide_set_in = p_sub_group->getPeptideSet();
177
178 auto it_peptide_end = peptide_set_in.m_peptidePtrList.end();
179 std::map<GrpPeptide *, GrpSubGroupSet>::const_iterator it_map_end =
180 m_mapPeptideToSubGroupSet.end();
181
182 for(auto it_peptide = peptide_set_in.m_peptidePtrList.begin();
183 it_peptide != it_peptide_end;
184 it_peptide++)
185 {
186 std::map<GrpPeptide *, GrpSubGroupSet>::const_iterator it_map =
187 m_mapPeptideToSubGroupSet.find(*it_peptide);
188 if(it_map != it_map_end)
189 {
190 if(it_map->second.size() == 1)
191 {
192 return true;
193 }
194 }
195 else
196 {
197 throw PappsoException(
198 QObject::tr("hasSpecificPeptide ERROR, peptide %1 from subgroup %2 "
199 "not referenced in GrpMapPeptideToSubGroupSet")
200 .arg((*it_peptide)->getSequence())
201 .arg(p_sub_group->getFirstAccession()));
202 }
203 }
204
205 qDebug() << "GrpMapPeptideToSubGroupSet::hasSpecificPeptide end";
206 return false;
207}

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

◆ printInfos()

const QString pappso::GrpMapPeptideToSubGroupSet::printInfos ( ) const

Definition at line 210 of file grpmappeptidetosubgroupset.cpp.

211{
212 QString infos;
213 auto itMap = m_mapPeptideToSubGroupSet.begin();
214 auto itMapEnd = m_mapPeptideToSubGroupSet.end();
215
216 while(itMap != itMapEnd)
217 {
218 infos.append(
219 itMap->first->getSequence() + " " +
220 QString("0x%1").arg(
221 (quintptr)itMap->first, QT_POINTER_SIZE * 2, 16, QChar('0')) +
222 "\n");
223 itMap++;
224 }
225
226 return infos;
227}

References m_mapPeptideToSubGroupSet.

◆ 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 103 of file grpmappeptidetosubgroupset.cpp.

104{
105 qDebug() << "GrpMapPeptideToSubGroupSet::remove begin "
106 << p_remove_sub_group->getFirstAccession();
107 // std::list<std::pair<GrpPeptide*, GrpSubGroupSet>>
108 // m_mapPeptideToSubGroupSet;
109 const GrpPeptideSet &peptide_set_in = p_remove_sub_group->getPeptideSet();
110
111 auto it_peptide_end = peptide_set_in.m_peptidePtrList.end();
112 std::map<GrpPeptide *, GrpSubGroupSet>::const_iterator it_map_end =
113 m_mapPeptideToSubGroupSet.end();
114
115 for(auto it_peptide = peptide_set_in.m_peptidePtrList.begin();
116 it_peptide != it_peptide_end;
117 it_peptide++)
118 {
119 std::map<GrpPeptide *, GrpSubGroupSet>::iterator it_map =
120 m_mapPeptideToSubGroupSet.find(*it_peptide);
121 if(it_map != it_map_end)
122 {
123 it_map->second.remove(p_remove_sub_group);
124 if(it_map->second.size() == 0)
125 {
126 m_mapPeptideToSubGroupSet.erase(it_map);
127 }
128 }
129 else
130 {
131 throw PappsoException(
132 QObject::tr("remove ERROR, peptide %1 from subgroup %2 not "
133 "referenced in GrpMapPeptideToSubGroupSet")
134 .arg((*it_peptide)->getSequence())
135 .arg(p_remove_sub_group->getFirstAccession()));
136 }
137 }
138
139 qDebug() << "GrpMapPeptideToSubGroupSet::remove end "
140 << p_remove_sub_group->getFirstAccession();
141}

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

Referenced by check().

◆ 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 GrpMapPeptideToSubGroupSet(), add(), check(), getSubGroupSet(), hasSpecificPeptide(), printInfos(), and remove().

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