WIP: search on modifications

src/gui/protein_list_view/protein_view.ui

@@ -86,6 +86,11 @@
           <string>group</string>
          </property>
         </item>
+        <item>
+         <property name="text">
+          <string>modifications</string>
+         </property>
+        </item>
         <item>
          <property name="text">
           <string>msrun/scan</string>
@@ -106,6 +111,9 @@
       <item>
        <widget class="QLineEdit" name="protein_search_edit"/>
       </item>
+      <item>
+       <widget class="QLineEdit" name="mod_auto_completion"/>
+      </item>
       <item>
        <widget class="QLineEdit" name="msrun_auto_completion"/>
       </item>
@@ -246,6 +254,22 @@
     </hint>
    </hints>
   </connection>
+  <connection>
+   <sender>mod_auto_completion</sender>
+   <signal>textChanged(QString)</signal>
+   <receiver>ProteinView</receiver>
+   <slot>doModificationSearch(QString)</slot>
+   <hints>
+    <hint type="sourcelabel">
+     <x>417</x>
+     <y>350</y>
+    </hint>
+    <hint type="destinationlabel">
+     <x>999</x>
+     <y>408</y>
+    </hint>
+   </hints>
+  </connection>
  </connections>
  <slots>
   <slot>doNotValidHide(bool)</slot>
@@ -255,5 +279,6 @@
   <slot>doSearchOn(QString)</slot>
   <slot>doMsrunFileSearch(QString)</slot>
   <slot>doScanNumberSearch(int)</slot>
+  <slot>doModificationSearch(QString)</slot>
  </slots>
 </ui>

src/gui/protein_list_view/proteinlistwindow.cpp

@@ -103,6 +103,7 @@ ProteinListWindow::ProteinListWindow(ProjectWindow *parent):
 
     ui->scan_number_edit->setVisible(false);
     ui->msrun_auto_completion->setVisible(false);
+    ui->mod_auto_completion->setVisible(false);
     ui->protein_search_edit->setVisible(true);
 
 #if QT_VERSION >= 0x050000
@@ -225,17 +226,22 @@ void ProteinListWindow::doNotGroupedHide(bool hide) {
 void ProteinListWindow::doSearchOn(QString search_on) {
     qDebug() << "ProteinTableProxyModel::doSearchOn begin " << search_on;
     _p_proxy_model->setSearchOn( search_on);
+    ui->mod_auto_completion->setVisible(false);
+    ui->scan_number_edit->setVisible(false);
+    ui->msrun_auto_completion->setVisible(false);
+    ui->protein_search_edit->setVisible(false);
     if (search_on == "msrun/scan" ) {
 
         qDebug() << "ProteinTableProxyModel::doSearchOn visible " << search_on;
         ui->scan_number_edit->setVisible(true);
         ui->msrun_auto_completion->setVisible(true);
-        ui->protein_search_edit->setVisible(false);
+    } else if (search_on == "modifications" ) {
+
+        qDebug() << "ProteinTableProxyModel::doSearchOn visible " << search_on;
+        ui->mod_auto_completion->setVisible(true);
     }
     else {
         qDebug() << "ProteinTableProxyModel::doSearchOn hidden " << search_on;
-        ui->scan_number_edit->setVisible(false);
-        ui->msrun_auto_completion->setVisible(false);
         ui->protein_search_edit->setVisible(true);
     }
 
@@ -247,6 +253,9 @@ void ProteinListWindow::doMsrunFileSearch(QString msr_run_file_search) {
     emit proteinDataChanged();
 }
 
+void ProteinListWindow::doModificationSearch(QString mod_search) {
+    emit proteinDataChanged();
+}
 void ProteinListWindow::doScanNumberSearch(int scan_num) {
     emit proteinDataChanged();
 }
@@ -295,6 +304,19 @@ void ProteinListWindow::setIdentificationGroup(IdentificationGroup * p_identific
         ui->msrun_auto_completion->setCompleter(completer);
 
 
+        QStringList mod_list;
+        for (pappso::AaModificationP mod :_project_window->getProjectP()->getPeptideStore().getModificationCollection()) {
+            mod_list << QString("[%1] %2 %3").arg(mod->getAccession()).arg(mod->getName()).arg(mod->getMass());
+            //qDebug() << "ProteinListWindow::setIdentificationGroup " << msrun_sp.get()->getFilename();
+        }
+        completer = new QCompleter(mod_list, this);
+        completer->setCaseSensitivity(Qt::CaseInsensitive);
+
+        completer->setCompletionMode(QCompleter::PopupCompletion);
+        completer->setModelSorting(QCompleter::CaseSensitivelySortedModel);
+        completer->setFilterMode(Qt::MatchContains);
+        ui->mod_auto_completion->setCompleter(completer);
+
 
     }
     else {
@@ -321,3 +343,7 @@ bool ProteinListWindow::getProteinListColumnDisplay(ProteinListColumn column) co
 void ProteinListWindow::resizeColumnsToContents() {
     ui->tableView->resizeColumnsToContents();
 }
+
+ProjectWindow * ProteinListWindow::getProjectWindow() {
+    return _project_window;
+}

src/gui/protein_list_view/proteinlistwindow.h

@@ -86,6 +86,7 @@ protected slots:
     void doNotCheckedHide(bool hide);
     void doNotGroupedHide(bool hide);
     void doMsrunFileSearch(QString msr_run_file_search);
+    void doModificationSearch(QString mod_search);
     void doScanNumberSearch(int scan_num);
     void doProxyLayoutChanged();
     void showContextMenu(const QPoint &);
@@ -96,6 +97,7 @@ protected slots:
 protected :
     void askProteinDetailView(ProteinMatch * p_protein_match);
     void askPeptideListView(ProteinMatch * p_protein_match);
+    ProjectWindow * getProjectWindow();
 
 
 

src/gui/protein_list_view/proteintableproxymodel.cpp

@@ -28,6 +28,7 @@
 #include "proteintableproxymodel.h"
 #include "proteintablemodel.h"
 #include "proteinlistwindow.h"
+#include "../project_view/projectwindow.h"
 
 ProteinTableProxyModel::ProteinTableProxyModel(ProteinListWindow * p_protein_list_window, ProteinTableModel* protein_table_model_p): QSortFilterProxyModel(protein_table_model_p)
 {
@@ -78,6 +79,27 @@ bool ProteinTableProxyModel::filterAcceptsRow(int source_row,
             }
             return false;
         }
+        if (_search_on == "modifications") {
+            unsigned int scan_num = this->_p_protein_list_window->ui->scan_number_edit->value();
+            QString mod_search_string = this->_p_protein_list_window->ui->msrun_auto_completion->text();
+
+            std::vector<pappso::AaModificationP> mod_list;
+            for (pappso::AaModificationP mod :_p_protein_list_window->getProjectWindow()->getProjectP()->getPeptideStore().getModificationCollection()) {
+                if (QString("[%1] %2 %3").arg(mod->getAccession()).arg(mod->getName()).arg(mod->getMass()).contains(mod_search_string)) {
+                    mod_list.push_back(mod);
+                }
+                //qDebug() << "ProteinListWindow::setIdentificationGroup " << msrun_sp.get()->getFilename();
+            }
+            //qDebug() << "ProteinTableProxyModel::filterAcceptsRow msrun/scan " << file_search_string << " " << scan_num;
+            for (const PeptideMatch & p_peptide_match: protein_match->getPeptideMatchList()) {
+                for (pappso::AaModificationP mod :mod_list) {
+                    if (p_peptide_match.getPeptideEvidence()->getPeptideXtpSp().get()->getNumberOfModification(mod) > 0) {
+                        return true;
+                    }
+                }
+            }
+            return false;
+        }
         if (!_protein_search_string.isEmpty()) {
             if (_search_on == "accession") {
                 if (!protein_match->getProteinXtpSp().get()->getAccession().contains(_protein_search_string)) {