From cb571c38be34e90fe496372224abbf66dcc5a078 Mon Sep 17 00:00:00 2001
From: Olivier Langella <olivier.langella@u-psud.fr>
Date: Sat, 16 Mar 2019 10:42:38 +0100
Subject: [PATCH] new peptide Nter and Cter columns
---
.../peptide_list_view/peptidetablemodel.cpp | 14 +++-
src/gui/peptide_list_view/peptidetablemodel.h | 68 ++++++++++---------
2 files changed, 48 insertions(+), 34 deletions(-)
diff --git a/src/gui/peptide_list_view/peptidetablemodel.cpp b/src/gui/peptide_list_view/peptidetablemodel.cpp
index b8ed59b4..e7e4684e 100644
--- a/src/gui/peptide_list_view/peptidetablemodel.cpp
+++ b/src/gui/peptide_list_view/peptidetablemodel.cpp
@@ -149,7 +149,7 @@ PeptideTableModel::rowCount(const QModelIndex &parent) const
int
PeptideTableModel::columnCount(const QModelIndex &parent) const
{
- return 40;
+ return 42;
}
QVariant
PeptideTableModel::headerData(int section, Qt::Orientation orientation,
@@ -577,9 +577,15 @@ PeptideTableModel::getTitle(std::int8_t column)
case(std::int8_t)PeptideListColumn::experimental_mz:
return "observed m/z";
break;
+ case(std::int8_t)PeptideListColumn::sequence_nter:
+ return "Nter";
+ break;
case(std::int8_t)PeptideListColumn::sequence:
return "sequence";
break;
+ case(std::int8_t)PeptideListColumn::sequence_cter:
+ return "Cter";
+ break;
case(std::int8_t)PeptideListColumn::modifs:
return "modifs";
break;
@@ -712,9 +718,15 @@ PeptideTableModel::getDescription(std::int8_t column)
case(std::int8_t)PeptideListColumn::experimental_mz:
return "observed m/z (experimental m/z of precursor)";
break;
+ case(std::int8_t)PeptideListColumn::sequence_nter:
+ return "flanking protein amino acid on peptide Nter side";
+ break;
case(std::int8_t)PeptideListColumn::sequence:
return "peptide sequence";
break;
+ case(std::int8_t)PeptideListColumn::sequence_cter:
+ return "flanking protein amino acid on peptide Cter side";
+ break;
case(std::int8_t)PeptideListColumn::modifs:
return "peptide modifications";
break;
diff --git a/src/gui/peptide_list_view/peptidetablemodel.h b/src/gui/peptide_list_view/peptidetablemodel.h
index 82addadd..13cad620 100644
--- a/src/gui/peptide_list_view/peptidetablemodel.h
+++ b/src/gui/peptide_list_view/peptidetablemodel.h
@@ -43,40 +43,42 @@ enum class PeptideListColumn : std::int8_t
rt = 6,
charge = 7,
experimental_mz = 8,
- sequence = 9,
- modifs = 10,
- label = 11,
- start = 12,
- length = 13,
- used = 14,
- subgroups = 15,
- Evalue = 16,
- experimental_mhplus = 17,
- theoretical_mhplus = 18,
- delta_mhplus = 19,
- delta_ppm = 20,
- peptide_prophet_probability = 21, ///< no PSI MS description
- peptide_inter_prophet_probability = 22, ///< no PSI MS description
- tandem_hyperscore = 23, ///< X!Tandem hyperscore MS:1001331
- mascot_score = 24, ///< PSI-MS MS:1001171 mascot:score 56.16
+ sequence_nter = 9,
+ sequence = 10,
+ sequence_cter = 11,
+ modifs = 12,
+ label = 13,
+ start = 14,
+ length = 15,
+ used = 16,
+ subgroups = 17,
+ Evalue = 18,
+ experimental_mhplus = 19,
+ theoretical_mhplus = 20,
+ delta_mhplus = 21,
+ delta_ppm = 22,
+ peptide_prophet_probability = 23, ///< no PSI MS description
+ peptide_inter_prophet_probability = 24, ///< no PSI MS description
+ tandem_hyperscore = 25, ///< X!Tandem hyperscore MS:1001331
+ mascot_score = 26, ///< PSI-MS MS:1001171 mascot:score 56.16
mascot_expectation_value =
- 25, ///< PSI-MS MS:1001172 mascot:expectation value 2.42102904673618e-006
- omssa_evalue = 26, ///< MS:1001328 "OMSSA E-value." [PSI:PI]
- omssa_pvalue = 27, ///< MS:1001329 "OMSSA p-value." [PSI:PI]
- msgfplus_raw = 28, ///< MS:1002049 "MS-GF raw score." [PSI:PI]
- msgfplus_denovo = 29, ///< MS:1002050 "MS-GF de novo score." [PSI:PI]
- msgfplus_energy = 30, ///< MS:1002051 "MS-GF energy score." [PSI:PI]
- msgfplus_SpecEValue = 31, ///< MS:1002052 "MS-GF spectral E-value." [PSI:PI]
- msgfplus_EValue = 32, ///< MS:1002053 "MS-GF E-value." [PSI:PI]
- msgfplus_isotope_error = 33, ///< MS:1002053 "MS-GF E-value." [PSI:PI]
- comet_xcorr = 34, ///< MS:1002252 "The Comet result 'XCorr'." [PSI:PI]
- comet_deltacn = 35, ///< MS:1002253 "The Comet result 'DeltaCn'." [PSI:PI]
+ 27, ///< PSI-MS MS:1001172 mascot:expectation value 2.42102904673618e-006
+ omssa_evalue = 28, ///< MS:1001328 "OMSSA E-value." [PSI:PI]
+ omssa_pvalue = 29, ///< MS:1001329 "OMSSA p-value." [PSI:PI]
+ msgfplus_raw = 30, ///< MS:1002049 "MS-GF raw score." [PSI:PI]
+ msgfplus_denovo = 31, ///< MS:1002050 "MS-GF de novo score." [PSI:PI]
+ msgfplus_energy = 32, ///< MS:1002051 "MS-GF energy score." [PSI:PI]
+ msgfplus_SpecEValue = 33, ///< MS:1002052 "MS-GF spectral E-value." [PSI:PI]
+ msgfplus_EValue = 34, ///< MS:1002053 "MS-GF E-value." [PSI:PI]
+ msgfplus_isotope_error = 35, ///< MS:1002053 "MS-GF E-value." [PSI:PI]
+ comet_xcorr = 36, ///< MS:1002252 "The Comet result 'XCorr'." [PSI:PI]
+ comet_deltacn = 37, ///< MS:1002253 "The Comet result 'DeltaCn'." [PSI:PI]
comet_deltacnstar =
- 36, ///< MS:1002254 "The Comet result 'DeltaCnStar'." [PSI:PI]
- comet_spscore = 37, ///< MS:1002255 "The Comet result 'SpScore'." [PSI:PI]
- comet_sprank = 38, ///< MS:1002256 "The Comet result 'SpRank'." [PSI:PI]
+ 38, ///< MS:1002254 "The Comet result 'DeltaCnStar'." [PSI:PI]
+ comet_spscore = 39, ///< MS:1002255 "The Comet result 'SpScore'." [PSI:PI]
+ comet_sprank = 40, ///< MS:1002256 "The Comet result 'SpRank'." [PSI:PI]
comet_expectation_value =
- 39, ///< MS:1002257 "The Comet result 'Expectation value'." [PSI:PI]
+ 41, ///< MS:1002257 "The Comet result 'Expectation value'." [PSI:PI]
};
class PeptideListWindow;
@@ -88,8 +90,8 @@ class PeptideTableModel : public QAbstractTableModel
PeptideTableModel(PeptideListWindow *parent);
int rowCount(const QModelIndex &parent = QModelIndex()) const override;
int columnCount(const QModelIndex &parent = QModelIndex()) const override;
- QVariant headerData(int section, Qt::Orientation orientation,
- int role) const override;
+ QVariant
+ headerData(int section, Qt::Orientation orientation, int role) const override;
QVariant data(const QModelIndex &index,
int role = Qt::DisplayRole) const override;
--
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