libpappsomspp
Library for mass spectrometry
peptidesizefilter.cpp
Go to the documentation of this file.
1 
2 /*******************************************************************************
3  * Copyright (c) 2015 Olivier Langella <Olivier.Langella@moulon.inra.fr>.
4  *
5  * This file is part of the PAPPSOms++ library.
6  *
7  * PAPPSOms++ is free software: you can redistribute it and/or modify
8  * it under the terms of the GNU General Public License as published by
9  * the Free Software Foundation, either version 3 of the License, or
10  * (at your option) any later version.
11  *
12  * PAPPSOms++ is distributed in the hope that it will be useful,
13  * but WITHOUT ANY WARRANTY; without even the implied warranty of
14  * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
15  * GNU General Public License for more details.
16  *
17  * You should have received a copy of the GNU General Public License
18  * along with PAPPSOms++. If not, see <http://www.gnu.org/licenses/>.
19  *
20  * Contributors:
21  * Olivier Langella <Olivier.Langella@moulon.inra.fr> - initial API and
22  *implementation
23  ******************************************************************************/
24 
25 #include "peptidesizefilter.h"
26 
27 namespace pappso
28 {
30  unsigned int max_size)
31  : m_minSize(min_size), m_maxSize(max_size)
32 {
33 }
34 
36 {
37 }
38 
39 void
40 PeptideSizeFilter::setPeptide(std::int8_t sequence_database_id,
41  const ProteinSp &protein_sp,
42  bool is_decoy,
43  const QString &peptide,
44  unsigned int start,
45  bool is_nter,
46  unsigned int missed_cleavage_number,
47  bool semi_enzyme)
48 {
49  if((peptide.size() >= m_minSize) && (peptide.size() <= m_maxSize))
50  {
51  m_sink->setPeptide(sequence_database_id,
52  protein_sp,
53  is_decoy,
54  peptide,
55  start,
56  is_nter,
57  missed_cleavage_number,
58  semi_enzyme);
59  }
60 }
61 } // namespace pappso
virtual void setPeptide(std::int8_t sequence_database_id, const ProteinSp &protein_sp, bool is_decoy, const PeptideStr &peptide, unsigned int start, bool is_nter, unsigned int missed_cleavage_number, bool semi_enzyme)=0
function to give the products of a protein digestion by an enzyme
EnzymeProductInterface * m_sink
PeptideSizeFilter(unsigned int min_size, unsigned int max_size)
void setPeptide(std::int8_t sequence_database_id, const ProteinSp &protein_sp, bool is_decoy, const QString &peptide, unsigned int start, bool is_nter, unsigned int missed_cleavage_number, bool semi_enzyme) override
function to give the products of a protein digestion by an enzyme
tries to keep as much as possible monoisotopes, removing any possible C13 peaks and changes multichar...
Definition: aa.cpp:39
std::shared_ptr< const Protein > ProteinSp
shared pointer on a Protein object
Definition: protein.h:43