new files to display ptm islands

src/grouping/ptm/ptmgroupingexperiment.cpp

@@ -72,6 +72,10 @@ PtmGroupingExperiment::~PtmGroupingExperiment()
 
 }
 
+const std::vector<PtmIslandSp> & PtmGroupingExperiment::getPtmIslandList() {
+  return _ptm_island_list;
+}
+
 void PtmGroupingExperiment::numbering() {
     std::sort(_ptm_island_group_list.begin(), _ptm_island_group_list.end(),[](const PtmIslandGroupSp a, const PtmIslandGroupSp b)
     {

src/grouping/ptm/ptmgroupingexperiment.h

@@ -45,6 +45,8 @@ public:
     void setValidationState(ValidationState validation_state);
     void addProteinMatch(const ProteinMatch* p_protein_match);
     void startGrouping();
+    
+    const std::vector<PtmIslandSp> & getPtmIslandList();
 
 private:
     std::vector<unsigned int> getPtmPositions(const ProteinMatch * protein_match) const;

src/gui/ptm_island_list_view/ptm_island_list_view.ui

 <?xml version="1.0" encoding="UTF-8"?>
 <ui version="4.0">
- <class>ptm_island_list_window</class>
+ <class>PtmIslandListWindow</class>
  <widget class="QMainWindow" name="ptm_island_list_window">
   <property name="geometry">
    <rect>

src/gui/ptm_island_list_view/ptmislandlistwindow.cpp

+/**
+ * \file gui/ptm_island_list_window/ptmislandlistwindow.cpp
+ * \date 30/5/2017
+ * \author Olivier Langella
+ * \brief display all ptm islands
+ */
+
+/*******************************************************************************
+* Copyright (c) 2017 Olivier Langella <olivier.langella@u-psud.fr>.
+*
+* This file is part of XTPcpp.
+*
+*     XTPcpp is free software: you can redistribute it and/or modify
+*     it under the terms of the GNU General Public License as published by
+*     the Free Software Foundation, either version 3 of the License, or
+*     (at your option) any later version.
+*
+*     XTPcpp is distributed in the hope that it will be useful,
+*     but WITHOUT ANY WARRANTY; without even the implied warranty of
+*     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+*     GNU General Public License for more details.
+*
+*     You should have received a copy of the GNU General Public License
+*     along with XTPcpp.  If not, see <http://www.gnu.org/licenses/>.
+*
+* Contributors:
+*     Olivier Langella <olivier.langella@u-psud.fr> - initial API and implementation
+******************************************************************************/
+
+#include "ptmislandlistwindow.h"
+
+PtmIslandListWindow::PtmIslandListWindow(const PtmIslandListWindow& other)
+{
+
+}
+
+PtmIslandListWindow::~PtmIslandListWindow()
+{
+
+}

src/gui/ptm_island_list_view/ptmislandlistwindow.h

+/**
+ * \file gui/ptm_island_list_window/ptmislandlistwindow.h
+ * \date 30/5/2017
+ * \author Olivier Langella
+ * \brief display all ptm islands
+ */
+
+/*******************************************************************************
+* Copyright (c) 2017 Olivier Langella <olivier.langella@u-psud.fr>.
+*
+* This file is part of XTPcpp.
+*
+*     XTPcpp is free software: you can redistribute it and/or modify
+*     it under the terms of the GNU General Public License as published by
+*     the Free Software Foundation, either version 3 of the License, or
+*     (at your option) any later version.
+*
+*     XTPcpp is distributed in the hope that it will be useful,
+*     but WITHOUT ANY WARRANTY; without even the implied warranty of
+*     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+*     GNU General Public License for more details.
+*
+*     You should have received a copy of the GNU General Public License
+*     along with XTPcpp.  If not, see <http://www.gnu.org/licenses/>.
+*
+* Contributors:
+*     Olivier Langella <olivier.langella@u-psud.fr> - initial API and implementation
+******************************************************************************/
+
+#ifndef PTMISLANDLISTWINDOW_H
+#define PTMISLANDLISTWINDOW_H
+#include <QMainWindow>
+#include "ptmislandtablemodel.h"
+#include "ptmislandproxymodel.h"
+
+class ProjectWindow;
+
+//http://doc.qt.io/qt-4.8/qt-itemviews-chart-mainwindow-cpp.html
+namespace Ui {
+class PtmIslandListWindow;
+}
+
+class PtmIslandListWindow: public QMainWindow {
+    Q_OBJECT
+public:
+
+    explicit PtmIslandListWindow(ProjectWindow * parent = 0);
+    ~PtmIslandListWindow();
+    void setIdentificationGroup(IdentificationGroup * p_identification_group);
+
+public slots:
+    void doFocusReceived(bool has_focus);
+    void doIdentificationGroupGrouped(IdentificationGroup * p_identification_group);
+
+
+protected slots:
+    void doNotValidHide(bool hide);
+    void doNotCheckedHide(bool hide);
+    void doNotGroupedHide(bool hide);
+    void doProxyLayoutChanged();
+    void showContextMenu(const QPoint &);
+    void updateStatusBar();
+    void onProteinSearchEdit(QString protein_search_string);
+    void doSearchOn(QString search_on);
+
+protected :
+    void askProteinDetailView(ProteinMatch * p_protein_match);
+    void askPeptideListView(ProteinMatch * p_protein_match);
+
+
+
+private:
+    IdentificationGroup * _p_identification_group=nullptr;
+    Ui::ProteinView *ui;
+    ProteinTableModel * _protein_table_model_p = nullptr;
+    ProteinTableProxyModel * _p_proxy_model = nullptr;
+    ProjectWindow * _project_window;
+
+};
+
+#endif // PTMISLANDLISTWINDOW_H

src/gui/ptm_island_list_view/ptmislandproxymodel.cpp

+/**
+ * \file gui/ptm_island_list_window/ptmislandproxymodel.cpp
+ * \date 30/5/2017
+ * \author Olivier Langella
+ * \brief display all ptm islands
+ */
+
+/*******************************************************************************
+* Copyright (c) 2017 Olivier Langella <olivier.langella@u-psud.fr>.
+*
+* This file is part of XTPcpp.
+*
+*     XTPcpp is free software: you can redistribute it and/or modify
+*     it under the terms of the GNU General Public License as published by
+*     the Free Software Foundation, either version 3 of the License, or
+*     (at your option) any later version.
+*
+*     XTPcpp is distributed in the hope that it will be useful,
+*     but WITHOUT ANY WARRANTY; without even the implied warranty of
+*     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+*     GNU General Public License for more details.
+*
+*     You should have received a copy of the GNU General Public License
+*     along with XTPcpp.  If not, see <http://www.gnu.org/licenses/>.
+*
+* Contributors:
+*     Olivier Langella <olivier.langella@u-psud.fr> - initial API and implementation
+******************************************************************************/
+
+#include "ptmislandproxymodel.h"
+
+PtmIslandProxyModel::PtmIslandProxyModel(const PtmIslandProxyModel& other)
+{
+
+}
+
+PtmIslandProxyModel::~PtmIslandProxyModel()
+{
+
+}

src/gui/ptm_island_list_view/ptmislandproxymodel.h

+/**
+ * \file gui/ptm_island_list_window/ptmislandproxymodel.h
+ * \date 30/5/2017
+ * \author Olivier Langella
+ * \brief display all ptm islands
+ */
+
+/*******************************************************************************
+* Copyright (c) 2017 Olivier Langella <olivier.langella@u-psud.fr>.
+*
+* This file is part of XTPcpp.
+*
+*     XTPcpp is free software: you can redistribute it and/or modify
+*     it under the terms of the GNU General Public License as published by
+*     the Free Software Foundation, either version 3 of the License, or
+*     (at your option) any later version.
+*
+*     XTPcpp is distributed in the hope that it will be useful,
+*     but WITHOUT ANY WARRANTY; without even the implied warranty of
+*     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+*     GNU General Public License for more details.
+*
+*     You should have received a copy of the GNU General Public License
+*     along with XTPcpp.  If not, see <http://www.gnu.org/licenses/>.
+*
+* Contributors:
+*     Olivier Langella <olivier.langella@u-psud.fr> - initial API and implementation
+******************************************************************************/
+
+#ifndef PTMISLANDPROXYMODEL_H
+#define PTMISLANDPROXYMODEL_H
+
+class PtmIslandProxyModel
+{
+public:
+    PtmIslandProxyModel(const PtmIslandProxyModel& other);
+    ~PtmIslandProxyModel();
+};
+
+#endif // PTMISLANDPROXYMODEL_H

src/gui/ptm_island_list_view/ptmislandtablemodel.cpp

+/**
+ * \file gui/ptm_island_list_window/ptmislandtablemodel.h
+ * \date 30/5/2017
+ * \author Olivier Langella
+ * \brief display all ptm islands
+ */
+
+/*******************************************************************************
+* Copyright (c) 2017 Olivier Langella <olivier.langella@u-psud.fr>.
+*
+* This file is part of XTPcpp.
+*
+*     XTPcpp is free software: you can redistribute it and/or modify
+*     it under the terms of the GNU General Public License as published by
+*     the Free Software Foundation, either version 3 of the License, or
+*     (at your option) any later version.
+*
+*     XTPcpp is distributed in the hope that it will be useful,
+*     but WITHOUT ANY WARRANTY; without even the implied warranty of
+*     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+*     GNU General Public License for more details.
+*
+*     You should have received a copy of the GNU General Public License
+*     along with XTPcpp.  If not, see <http://www.gnu.org/licenses/>.
+*
+* Contributors:
+*     Olivier Langella <olivier.langella@u-psud.fr> - initial API and implementation
+******************************************************************************/
+
+#include "ptmislandtablemodel.h"
+
+PtmIslandTableModel::PtmIslandTableModel(const PtmIslandTableModel& other)
+{
+
+}
+
+PtmIslandTableModel::~PtmIslandTableModel()
+{
+
+}

src/gui/ptm_island_list_view/ptmislandtablemodel.h

+/**
+ * \file gui/ptm_island_list_window/ptmislandtablemodel.h
+ * \date 30/5/2017
+ * \author Olivier Langella
+ * \brief display all ptm islands
+ */
+
+/*******************************************************************************
+* Copyright (c) 2017 Olivier Langella <olivier.langella@u-psud.fr>.
+*
+* This file is part of XTPcpp.
+*
+*     XTPcpp is free software: you can redistribute it and/or modify
+*     it under the terms of the GNU General Public License as published by
+*     the Free Software Foundation, either version 3 of the License, or
+*     (at your option) any later version.
+*
+*     XTPcpp is distributed in the hope that it will be useful,
+*     but WITHOUT ANY WARRANTY; without even the implied warranty of
+*     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+*     GNU General Public License for more details.
+*
+*     You should have received a copy of the GNU General Public License
+*     along with XTPcpp.  If not, see <http://www.gnu.org/licenses/>.
+*
+* Contributors:
+*     Olivier Langella <olivier.langella@u-psud.fr> - initial API and implementation
+******************************************************************************/
+
+#ifndef PTMISLANDTABLEMODEL_H
+#define PTMISLANDTABLEMODEL_H
+
+class PtmIslandTableModel
+{
+public:
+    PtmIslandTableModel(const PtmIslandTableModel& other);
+    ~PtmIslandTableModel();
+};
+
+#endif // PTMISLANDTABLEMODEL_H