From e229909a1385c91ad15d2d0828c4bc63350b64b3 Mon Sep 17 00:00:00 2001
From: Olivier Langella <Olivier.Langella@moulon.inra.fr>
Date: Thu, 23 Mar 2017 14:08:30 +0100
Subject: [PATCH] doxygen documentation
---
src/core/peptidematch.h | 6 ++++--
src/core/proteinmatch.cpp | 2 +-
src/input/xpipsaxhandler.cpp | 2 +-
3 files changed, 6 insertions(+), 4 deletions(-)
diff --git a/src/core/peptidematch.h b/src/core/peptidematch.h
index c65b2021..c1eddbb6 100644
--- a/src/core/peptidematch.h
+++ b/src/core/peptidematch.h
@@ -40,10 +40,12 @@ public :
void setEvalue(pappso::pappso_double evalue);
void setExperimentalMass(pappso::pappso_double exp_mass);
- /** @brief start position on the protein sequence (starts at 1, not 0)
+/** @brief set start position of this peptide inside the protein sequence
+ * @param start position in the protein amino acid sequence (starts at 0)
* */
void setStart(unsigned int start);
- /** @brief get start position on the protein sequence (starts at 1, not 0)
+/** @brief get start position of this peptide inside the protein sequence
+ * @return start position in the protein amino acid sequence (starts at 0)
* */
unsigned int getStart() const;
void setCharge(unsigned int charge);
diff --git a/src/core/proteinmatch.cpp b/src/core/proteinmatch.cpp
index d7b8d391..b03473c2 100644
--- a/src/core/proteinmatch.cpp
+++ b/src/core/proteinmatch.cpp
@@ -138,7 +138,7 @@ const pappso::GrpProteinSp & ProteinMatch::getGrpProteinSp() const {
for (auto & p_peptide_match : _peptide_match_list) {
if (p_peptide_match->isValidAndChecked()) {
size_t size = p_peptide_match->getPeptideSp().get()->size();
- size_t offset = p_peptide_match->getStart()-1;
+ size_t offset = p_peptide_match->getStart();
if (offset >= 0) {
for (size_t i=0; (i < size) && (offset < prot_size) ; i++,offset++) {
cover_bool[offset] = true;
diff --git a/src/input/xpipsaxhandler.cpp b/src/input/xpipsaxhandler.cpp
index 569c0453..719ebbd8 100644
--- a/src/input/xpipsaxhandler.cpp
+++ b/src/input/xpipsaxhandler.cpp
@@ -241,7 +241,7 @@ bool XpipSaxHandler::startElement_peptide(QXmlAttributes attributes) {
_p_peptide_match->setEvalue(attributes.value("evalue").simplified().toDouble());
pappso::pappso_double exp_mass = attributes.value("mhplus_obser").simplified().toDouble() - pappso::MHPLUS;
_p_peptide_match->setExperimentalMass(exp_mass);
- _p_peptide_match->setStart(attributes.value("start").simplified().toUInt());
+ _p_peptide_match->setStart(attributes.value("start").simplified().toUInt()-1);
_p_peptide_match->setCharge(attributes.value("charge").simplified().toUInt());
_p_peptide_match->setCharge(attributes.value("charge").simplified().toUInt());
--
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