#include <peptidemodificatortee.h>

Inheritance diagram for pappso::PeptideModificatorTee:

Public Member Functions
	PeptideModificatorTee ()

	PeptideModificatorTee (const PeptideModificatorTee &other)

virtual	~PeptideModificatorTee ()

void	setPeptideSp (std::int8_t sequence_database_id, const ProteinSp &protein_sp, bool is_decoy, const PeptideSp &peptide_sp_original, unsigned int start, bool is_nter, unsigned int missed_cleavage_number, bool semi_enzyme) override
	function to give the products of modifications for a digested peptide

void	addModificator (PeptideModificatorInterface *p_peptide_mod)

Public Member Functions inherited from pappso::PeptideModificatorInterface
virtual	~PeptideModificatorInterface ()

Private Attributes
std::list< PeptideModificatorInterface * >	m_peptideModPtrList

Detailed Description

Definition at line 34 of file peptidemodificatortee.h.

Constructor & Destructor Documentation

◆ PeptideModificatorTee() [1/2]

PeptideModificatorTee::PeptideModificatorTee ( )

Definition at line 28 of file peptidemodificatortee.cpp.

29{

30}

Referenced by PeptideModificatorTee().

◆ PeptideModificatorTee() [2/2]

PeptideModificatorTee::PeptideModificatorTee ( const PeptideModificatorTee & other )

Definition at line 32 of file peptidemodificatortee.cpp.

{
  throw PappsoException(
    QObject::tr("unable to copy PeptideModificatorTee object"));
  m_peptideModPtrList = other.m_peptideModPtrList;
}

References PeptideModificatorTee(), and m_peptideModPtrList.

◆ ~PeptideModificatorTee()

PeptideModificatorTee::~PeptideModificatorTee ( )

virtual

Definition at line 38 of file peptidemodificatortee.cpp.

39{

40}

Member Function Documentation

◆ addModificator()

void PeptideModificatorTee::addModificator ( PeptideModificatorInterface * p_peptide_mod )

Definition at line 43 of file peptidemodificatortee.cpp.

{
  m_peptideModPtrList.push_back(p_peptide_mod);
}

References m_peptideModPtrList.

◆ setPeptideSp()

void PeptideModificatorTee::setPeptideSp	(	std::int8_t	sequence_database_id,
		const ProteinSp &	protein_sp,
		bool	is_decoy,
		const PeptideSp &	peptide_sp,
		unsigned int	start,
		bool	is_nter,
		unsigned int	missed_cleavage_number,
		bool	semi_enzyme )

overridevirtual

function to give the products of modifications for a digested peptide

Parameters

sequence_database_id	integer that references the sequence fatabase (file, stream, url...)
protein_sp	shared pointer on the protein that was initialy digested
is_decoy	tell if the current protein is a decoy (true) or normal (false) protein
peptide	Peptide object containing sequence and possible modifications
start	the position of the first amino acid of the peptide in the original protein sequence. the first amino acid of the protein is at position 1.
is_nter	boolean to tell if the peptide is an Nter peptide (to allow Methionin Nter removal)
missed_cleavage_number	number of missed cleavage sites (that the enzyme has not cut) fot the product
semi_enzyme	boolean that tells if this peptide is the produce of a semi enzymatic lysis

Implements pappso::PeptideModificatorInterface.

Definition at line 51 of file peptidemodificatortee.cpp.

{
 
  qDebug() << "PeptideModificatorTee::setPeptide begin";
 
  for(auto p_peptide_mod : m_peptideModPtrList)
    {
      p_peptide_mod->setPeptideSp(sequence_database_id,
                                  protein_sp,
                                  is_decoy,
                                  peptide_sp_original,
                                  start,
                                  is_nter,
                                  missed_cleavage_number,
                                  semi_enzyme);
    }
 
  qDebug() << "PeptideModificatorTee::setPeptide end";
}

References m_peptideModPtrList.

Member Data Documentation

◆ m_peptideModPtrList

std::list<PeptideModificatorInterface *> pappso::PeptideModificatorTee::m_peptideModPtrList

private

Definition at line 54 of file peptidemodificatortee.h.

Referenced by PeptideModificatorTee(), addModificator(), and setPeptideSp().

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

pappsomspp/core/protein/peptidemodificatortee.h
pappsomspp/core/protein/peptidemodificatortee.cpp

Public Member Functions

Private Attributes