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Commit 0894979a authored by Langella Olivier's avatar Langella Olivier
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new contaminant widget is available

parent 7b92caa6
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with 284 additions and 144 deletions
src/gui/load_results_dialog/loadresultsdialog.cpp
+ 6
− 0
View file @ 0894979a
...@@ -104,3 +104,9 @@ void LoadResultsDialog::chooseFiles() { ...@@ -104,3 +104,9 @@ void LoadResultsDialog::chooseFiles() {
// tr("Error choosing identification result files : %1").arg(error.qwhat()), error); // tr("Error choosing identification result files : %1").arg(error.qwhat()), error);
} }
} }
void LoadResultsDialog::setProjectContaminants(Project * p_project) const {
ui->contaminant_widget->setProjectContaminants(p_project);
}
src/gui/load_results_dialog/loadresultsdialog.h
+ 2
− 0
View file @ 0894979a
...@@ -27,6 +27,7 @@ ...@@ -27,6 +27,7 @@
#include <QDialog> #include <QDialog>
#include <QStringListModel> #include <QStringListModel>
#include "../widgets/automatic_filter_widget/automaticfilterwidget.h" #include "../widgets/automatic_filter_widget/automaticfilterwidget.h"
#include "../../core/project.h"
namespace Ui { namespace Ui {
...@@ -45,6 +46,7 @@ public: ...@@ -45,6 +46,7 @@ public:
AutomaticFilterParameters getAutomaticFilterParameters() const; AutomaticFilterParameters getAutomaticFilterParameters() const;
QStringList getFileList() const; QStringList getFileList() const;
bool isIndividual() const; bool isIndividual() const;
void setProjectContaminants(Project * p_project) const;
public slots: public slots:
void chooseFiles(); void chooseFiles();
void clearFileList(); void clearFileList();
......
src/gui/mainwindow.cpp
+ 9
− 0
View file @ 0894979a
...@@ -226,6 +226,15 @@ void MainWindow::doGroupingFinished() { ...@@ -226,6 +226,15 @@ void MainWindow::doGroupingFinished() {
_project_window->setProjectSp(_project_sp); _project_window->setProjectSp(_project_sp);
} }
void MainWindow::doLoadingResultsReady(ProjectSp project_sp) {
qDebug() << "MainWindow::doLoadingResultsReady begin";
if (_p_load_results_dialog != nullptr) {
_p_load_results_dialog->setProjectContaminants(project_sp.get());
}
doProjectReady(project_sp);
qDebug() << "MainWindow::doLoadingResultsReady end";
}
void MainWindow::doProjectReady(ProjectSp project_sp) { void MainWindow::doProjectReady(ProjectSp project_sp) {
qDebug() << "MainWindow::doProjectReady begin"; qDebug() << "MainWindow::doProjectReady begin";
......
src/gui/mainwindow.h
+ 1
− 0
View file @ 0894979a
...@@ -82,6 +82,7 @@ public slots: ...@@ -82,6 +82,7 @@ public slots:
void doWorkerAppendText(char *); void doWorkerAppendText(char *);
void doWorkerSetText(QString); void doWorkerSetText(QString);
void doProjectReady(ProjectSp project_sp); void doProjectReady(ProjectSp project_sp);
void doLoadingResultsReady(ProjectSp project_sp);
void doProjectNotReady(QString error); void doProjectNotReady(QString error);
void doAcceptedLoadResultDialog(); void doAcceptedLoadResultDialog();
void doAcceptedTandemRunDialog(); void doAcceptedTandemRunDialog();
......
src/gui/project_view/project_view.ui
+ 34
− 91
View file @ 0894979a
...@@ -51,59 +51,29 @@ ...@@ -51,59 +51,29 @@
<item row="0" column="0"> <item row="0" column="0">
<layout class="QVBoxLayout" name="filter_parameter_tab_layout"> <layout class="QVBoxLayout" name="filter_parameter_tab_layout">
<item> <item>
<widget class="AutomaticFilterWidget" name="filter_parameter_widget" native="true"/> <widget class="AutomaticFilterWidget" name="filter_parameter_widget" native="true">
<property name="minimumSize">
<size>
<width>0</width>
<height>10</height>
</size>
</property>
<property name="sizeIncrement">
<size>
<width>0</width>
<height>0</height>
</size>
</property>
</widget>
</item> </item>
<item> <item>
<widget class="QGroupBox" name="contaminant_groupbox"> <widget class="ContaminantWidget" name="contaminant_widget" native="true">
<property name="title"> <property name="minimumSize">
<string>Contaminants</string> <size>
<width>0</width>
<height>10</height>
</size>
</property> </property>
<layout class="QVBoxLayout" name="verticalLayout_6">
<item>
<layout class="QHBoxLayout" name="horizontalLayout_4">
<item>
<widget class="QRadioButton" name="contaminant_file_radiobutton">
<property name="toolTip">
<string>select contaminants from fasta files</string>
</property>
<property name="text">
<string>contaminant file</string>
</property>
<attribute name="buttonGroup">
<string notr="true">contaminant_source_buttongroup</string>
</attribute>
</widget>
</item>
<item>
<widget class="QRadioButton" name="contaminant_regexp_radiobutton">
<property name="toolTip">
<string>select contaminants using a regular expression</string>
</property>
<property name="text">
<string>contaminant &amp;regular expression</string>
</property>
<attribute name="buttonGroup">
<string notr="true">contaminant_source_buttongroup</string>
</attribute>
</widget>
</item>
</layout>
</item>
<item>
<widget class="QListView" name="contaminant_database_listview"/>
</item>
<item>
<layout class="QVBoxLayout" name="verticalLayout_8">
<item>
<widget class="QLineEdit" name="contaminant_protein_regexp_line_edit">
<property name="placeholderText">
<string>^conta\\|</string>
</property>
</widget>
</item>
</layout>
</item>
</layout>
</widget> </widget>
</item> </item>
</layout> </layout>
...@@ -409,6 +379,12 @@ ...@@ -409,6 +379,12 @@
<header>gui/widgets/automatic_filter_widget/automaticfilterwidget.h</header> <header>gui/widgets/automatic_filter_widget/automaticfilterwidget.h</header>
<container>1</container> <container>1</container>
</customwidget> </customwidget>
<customwidget>
<class>ContaminantWidget</class>
<extends>QWidget</extends>
<header>gui/widgets/contaminant_widget/contaminantwidget.h</header>
<container>1</container>
</customwidget>
</customwidgets> </customwidgets>
<resources/> <resources/>
<connections> <connections>
...@@ -419,8 +395,8 @@ ...@@ -419,8 +395,8 @@
<slot>doFdrChanged()</slot> <slot>doFdrChanged()</slot>
<hints> <hints>
<hint type="sourcelabel"> <hint type="sourcelabel">
<x>442</x> <x>119</x>
<y>485</y> <y>104</y>
</hint> </hint>
<hint type="destinationlabel"> <hint type="destinationlabel">
<x>484</x> <x>484</x>
...@@ -435,8 +411,8 @@ ...@@ -435,8 +411,8 @@
<slot>doMassPrecisionUnitChanged(QString)</slot> <slot>doMassPrecisionUnitChanged(QString)</slot>
<hints> <hints>
<hint type="sourcelabel"> <hint type="sourcelabel">
<x>253</x> <x>119</x>
<y>113</y> <y>104</y>
</hint> </hint>
<hint type="destinationlabel"> <hint type="destinationlabel">
<x>489</x> <x>489</x>
...@@ -467,8 +443,8 @@ ...@@ -467,8 +443,8 @@
<slot>doSelectDecoySource()</slot> <slot>doSelectDecoySource()</slot>
<hints> <hints>
<hint type="sourcelabel"> <hint type="sourcelabel">
<x>110</x> <x>119</x>
<y>184</y> <y>104</y>
</hint> </hint>
<hint type="destinationlabel"> <hint type="destinationlabel">
<x>682</x> <x>682</x>
...@@ -483,8 +459,8 @@ ...@@ -483,8 +459,8 @@
<slot>doSelectDecoySource()</slot> <slot>doSelectDecoySource()</slot>
<hints> <hints>
<hint type="sourcelabel"> <hint type="sourcelabel">
<x>326</x> <x>119</x>
<y>192</y> <y>104</y>
</hint> </hint>
<hint type="destinationlabel"> <hint type="destinationlabel">
<x>693</x> <x>693</x>
...@@ -492,38 +468,6 @@ ...@@ -492,38 +468,6 @@
</hint> </hint>
</hints> </hints>
</connection> </connection>
<connection>
<sender>contaminant_file_radiobutton</sender>
<signal>clicked()</signal>
<receiver>ProjectView</receiver>
<slot>doSelectContaminantSource()</slot>
<hints>
<hint type="sourcelabel">
<x>159</x>
<y>127</y>
</hint>
<hint type="destinationlabel">
<x>581</x>
<y>113</y>
</hint>
</hints>
</connection>
<connection>
<sender>contaminant_regexp_radiobutton</sender>
<signal>clicked()</signal>
<receiver>ProjectView</receiver>
<slot>doSelectContaminantSource()</slot>
<hints>
<hint type="sourcelabel">
<x>408</x>
<y>129</y>
</hint>
<hint type="destinationlabel">
<x>578</x>
<y>62</y>
</hint>
</hints>
</connection>
</connections> </connections>
<slots> <slots>
<slot>doFdrChanged()</slot> <slot>doFdrChanged()</slot>
...@@ -533,7 +477,6 @@ ...@@ -533,7 +477,6 @@
<slot>doSelectContaminantSource()</slot> <slot>doSelectContaminantSource()</slot>
</slots> </slots>
<buttongroups> <buttongroups>
<buttongroup name="contaminant_source_buttongroup"/>
<buttongroup name="decoy_source_buttongroup"/> <buttongroup name="decoy_source_buttongroup"/>
</buttongroups> </buttongroups>
</ui> </ui>
src/gui/project_view/projectwindow.cpp
+ 3
− 42
View file @ 0894979a
...@@ -53,9 +53,6 @@ ProjectWindow::ProjectWindow(MainWindow *parent): ...@@ -53,9 +53,6 @@ ProjectWindow::ProjectWindow(MainWindow *parent):
_p_fasta_str_li = new QStandardItemModel(); _p_fasta_str_li = new QStandardItemModel();
ui->decoy_database_listview->setModel(_p_fasta_str_li); ui->decoy_database_listview->setModel(_p_fasta_str_li);
ui->contaminant_database_listview->setModel(_p_fasta_str_li);
QItemSelectionModel * selection_model = ui->contaminant_database_listview->selectionModel();
ui->contaminant_database_listview->setSelectionMode(QAbstractItemView::MultiSelection);
ui->decoy_database_listview->setSelectionMode(QAbstractItemView::MultiSelection); ui->decoy_database_listview->setSelectionMode(QAbstractItemView::MultiSelection);
...@@ -387,24 +384,8 @@ void ProjectWindow::doAutomaticFilterParametersChanged(AutomaticFilterParameters ...@@ -387,24 +384,8 @@ void ProjectWindow::doAutomaticFilterParametersChanged(AutomaticFilterParameters
showWaitingMessage(tr("Updating filters")); showWaitingMessage(tr("Updating filters"));
doDisplayLoadingMessage(tr("tagging contaminant proteins")); doDisplayLoadingMessage(tr("tagging contaminant proteins"));
if (ui->contaminant_file_radiobutton->isChecked()) {
QModelIndexList index_list = ui->contaminant_database_listview->selectionModel()->selectedIndexes(); ui->contaminant_widget->setProjectContaminants(_project_sp.get());
_project_sp.get()->getProteinStore().clearContaminants();
if (index_list.size() > 0) {
for (QModelIndex index :index_list) {
if (index.data(Qt::UserRole).canConvert<FastaFile *>()) {
FastaFile * p_fasta_file = index.data(Qt::UserRole).value<FastaFile *>();
p_fasta_file->setContaminants(_project_sp.get()->getProteinStore());
}
else {
throw pappso::PappsoException(QObject::tr("can not convert to FastaFile index.data().canConvert<FastaFile *>()"));
}
}
}
}
else {
_project_sp.get()->getProteinStore().setRegexpContaminantPattern(ui->contaminant_protein_regexp_line_edit->text());
}
doDisplayLoadingMessage(tr("updating filters")); doDisplayLoadingMessage(tr("updating filters"));
_project_sp.get()->updateAutomaticFilters(parameters); _project_sp.get()->updateAutomaticFilters(parameters);
...@@ -594,13 +575,7 @@ void ProjectWindow::setProjectSp(ProjectSp project_sp) { ...@@ -594,13 +575,7 @@ void ProjectWindow::setProjectSp(ProjectSp project_sp) {
ui->decoy_database_groupbox->setVisible(true); ui->decoy_database_groupbox->setVisible(true);
} }
ui->contaminant_regexp_radiobutton->setChecked(true); ui->contaminant_widget->getProjectContaminants(_project_sp.get());
ui->contaminant_database_listview->setVisible(false);
if (_project_sp.get()->getProteinStore().getContaminantFastaFileList().size() > 0) {
ui->contaminant_file_radiobutton->setChecked(true);
ui->contaminant_protein_regexp_line_edit->setVisible(false);
ui->contaminant_database_listview->setVisible(true);
}
qDebug() << "ProjectWindow::setProjectSp begin " << _project_sp.get()->getFastaFileStore().getFastaFileList().size() ; qDebug() << "ProjectWindow::setProjectSp begin " << _project_sp.get()->getFastaFileStore().getFastaFileList().size() ;
...@@ -710,7 +685,6 @@ void ProjectWindow::setProjectSp(ProjectSp project_sp) { ...@@ -710,7 +685,6 @@ void ProjectWindow::setProjectSp(ProjectSp project_sp) {
//_protein_list_window->show(); //_protein_list_window->show();
ui->decoy_protein_regexp_line_edit->setText(_project_sp.get()->getProteinStore().getRegexpDecoy().pattern()); ui->decoy_protein_regexp_line_edit->setText(_project_sp.get()->getProteinStore().getRegexpDecoy().pattern());
ui->contaminant_protein_regexp_line_edit->setText(_project_sp.get()->getProteinStore().getRegexpContaminant().pattern());
refresh(); refresh();
this->setEnabled(true); this->setEnabled(true);
...@@ -811,16 +785,3 @@ void ProjectWindow::doSelectDecoySource() { ...@@ -811,16 +785,3 @@ void ProjectWindow::doSelectDecoySource() {
} }
qDebug() << "ProjectWindow::doSelectDecoySource end"; qDebug() << "ProjectWindow::doSelectDecoySource end";
} }
void ProjectWindow::doSelectContaminantSource() {
qDebug() << "ProjectWindow::doSelectContaminantSource begin";
ui->contaminant_database_listview->setVisible(false);
ui->contaminant_protein_regexp_line_edit->setVisible(false);
if (ui->contaminant_file_radiobutton->isChecked()) {
ui->contaminant_database_listview->setVisible(true);
}
else {
ui->contaminant_protein_regexp_line_edit->setVisible(true);
}
qDebug() << "ProjectWindow::doSelectContaminantSource end";
}
src/gui/project_view/projectwindow.h
+ 0
− 1
View file @ 0894979a
...@@ -70,7 +70,6 @@ public slots: ...@@ -70,7 +70,6 @@ public slots:
void doAutomaticFilterParametersChanged(AutomaticFilterParameters parameters); void doAutomaticFilterParametersChanged(AutomaticFilterParameters parameters);
void doFdrChanged(); void doFdrChanged();
void doSelectDecoySource(); void doSelectDecoySource();
void doSelectContaminantSource();
void doMassPrecisionUnitChanged(QString combo_value); void doMassPrecisionUnitChanged(QString combo_value);
void doOperationFailed(QString); void doOperationFailed(QString);
void doOperationFinished(); void doOperationFinished();
......
src/gui/widgets/contaminant_widget/contaminant_widget.ui
+ 119
− 1
View file @ 0894979a
...@@ -30,6 +30,9 @@ ...@@ -30,6 +30,9 @@
<property name="text"> <property name="text">
<string>contaminant file</string> <string>contaminant file</string>
</property> </property>
<property name="checked">
<bool>true</bool>
</property>
<attribute name="buttonGroup"> <attribute name="buttonGroup">
<string notr="true">contaminant_source_buttongroup</string> <string notr="true">contaminant_source_buttongroup</string>
</attribute> </attribute>
...@@ -53,6 +56,51 @@ ...@@ -53,6 +56,51 @@
<item> <item>
<widget class="QListView" name="contaminant_database_listview"/> <widget class="QListView" name="contaminant_database_listview"/>
</item> </item>
<item>
<widget class="QWidget" name="control_list_widget" native="true">
<layout class="QHBoxLayout" name="horizontalLayout">
<property name="leftMargin">
<number>0</number>
</property>
<property name="topMargin">
<number>0</number>
</property>
<property name="rightMargin">
<number>0</number>
</property>
<property name="bottomMargin">
<number>0</number>
</property>
<item>
<spacer name="horizontalSpacer">
<property name="orientation">
<enum>Qt::Horizontal</enum>
</property>
<property name="sizeHint" stdset="0">
<size>
<width>40</width>
<height>20</height>
</size>
</property>
</spacer>
</item>
<item>
<widget class="QPushButton" name="pushButton">
<property name="text">
<string>clear list</string>
</property>
</widget>
</item>
<item>
<widget class="QPushButton" name="pushButton_2">
<property name="text">
<string>add files</string>
</property>
</widget>
</item>
</layout>
</widget>
</item>
<item> <item>
<layout class="QVBoxLayout" name="verticalLayout_8"> <layout class="QVBoxLayout" name="verticalLayout_8">
<item> <item>
...@@ -70,7 +118,77 @@ ...@@ -70,7 +118,77 @@
</layout> </layout>
</widget> </widget>
<resources/> <resources/>
<connections/> <connections>
<connection>
<sender>contaminant_file_radiobutton</sender>
<signal>clicked()</signal>
<receiver>ContaminantWidget</receiver>
<slot>doSelectContaminantSource()</slot>
<hints>
<hint type="sourcelabel">
<x>113</x>
<y>58</y>
</hint>
<hint type="destinationlabel">
<x>735</x>
<y>64</y>
</hint>
</hints>
</connection>
<connection>
<sender>contaminant_regexp_radiobutton</sender>
<signal>clicked()</signal>
<receiver>ContaminantWidget</receiver>
<slot>doSelectContaminantSource()</slot>
<hints>
<hint type="sourcelabel">
<x>226</x>
<y>52</y>
</hint>
<hint type="destinationlabel">
<x>670</x>
<y>79</y>
</hint>
</hints>
</connection>
<connection>
<sender>pushButton_2</sender>
<signal>clicked()</signal>
<receiver>ContaminantWidget</receiver>
<slot>doSelectFastaFile()</slot>
<hints>
<hint type="sourcelabel">
<x>333</x>
<y>229</y>
</hint>
<hint type="destinationlabel">
<x>690</x>
<y>146</y>
</hint>
</hints>
</connection>
<connection>
<sender>pushButton</sender>
<signal>clicked()</signal>
<receiver>ContaminantWidget</receiver>
<slot>doClearList()</slot>
<hints>
<hint type="sourcelabel">
<x>269</x>
<y>220</y>
</hint>
<hint type="destinationlabel">
<x>508</x>
<y>201</y>
</hint>
</hints>
</connection>
</connections>
<slots>
<slot>doSelectContaminantSource()</slot>
<slot>doSelectFastaFile()</slot>
<slot>doClearList()</slot>
</slots>
<buttongroups> <buttongroups>
<buttongroup name="contaminant_source_buttongroup"/> <buttongroup name="contaminant_source_buttongroup"/>
</buttongroups> </buttongroups>
......
src/gui/widgets/contaminant_widget/contaminantwidget.cpp
+ 95
− 5
View file @ 0894979a
...@@ -32,7 +32,9 @@ ...@@ -32,7 +32,9 @@
#include "ui_contaminant_widget.h" #include "ui_contaminant_widget.h"
#include <QDebug> #include <QDebug>
#include <pappsomspp/pappsoexception.h>
#include <QSettings>
#include <QFileDialog>
ContaminantWidget::ContaminantWidget(QWidget * parent): ContaminantWidget::ContaminantWidget(QWidget * parent):
QWidget(parent), QWidget(parent),
...@@ -45,6 +47,8 @@ ContaminantWidget::ContaminantWidget(QWidget * parent): ...@@ -45,6 +47,8 @@ ContaminantWidget::ContaminantWidget(QWidget * parent):
ui->contaminant_database_listview->setModel(_p_fasta_str_li); ui->contaminant_database_listview->setModel(_p_fasta_str_li);
QItemSelectionModel * selection_model = ui->contaminant_database_listview->selectionModel(); QItemSelectionModel * selection_model = ui->contaminant_database_listview->selectionModel();
ui->contaminant_database_listview->setSelectionMode(QAbstractItemView::MultiSelection); ui->contaminant_database_listview->setSelectionMode(QAbstractItemView::MultiSelection);
doSelectContaminantSource();
qDebug() << "ContaminantWidget::ContaminantWidget end"; qDebug() << "ContaminantWidget::ContaminantWidget end";
} }
...@@ -61,13 +65,10 @@ void ContaminantWidget::setRegexpContaminantPattern(const QString & pattern) { ...@@ -61,13 +65,10 @@ void ContaminantWidget::setRegexpContaminantPattern(const QString & pattern) {
ui->contaminant_protein_regexp_line_edit->setText(pattern); ui->contaminant_protein_regexp_line_edit->setText(pattern);
} }
const QString ContaminantWidget::getRegexpContaminant() const {
return ui->contaminant_protein_regexp_line_edit->text();
}
void ContaminantWidget::setFastaFileList(std::vector<FastaFileSp> fasta_file_list) { void ContaminantWidget::setFastaFileList(std::vector<FastaFileSp> fasta_file_list) {
_fasta_file_list = fasta_file_list;
_p_fasta_str_li->removeRows(0, _p_fasta_str_li->rowCount()); _p_fasta_str_li->removeRows(0, _p_fasta_str_li->rowCount());
for (FastaFileSp fasta_file : fasta_file_list ) { for (FastaFileSp fasta_file : fasta_file_list ) {
...@@ -80,3 +81,92 @@ void ContaminantWidget::setFastaFileList(std::vector<FastaFileSp> fasta_file_lis ...@@ -80,3 +81,92 @@ void ContaminantWidget::setFastaFileList(std::vector<FastaFileSp> fasta_file_lis
} }
} }
void ContaminantWidget::getProjectContaminants(const Project * p_project) {
ui->contaminant_regexp_radiobutton->setChecked(true);
ui->contaminant_database_listview->setVisible(false);
if (p_project->getProteinStore().getContaminantFastaFileList().size() > 0) {
ui->contaminant_file_radiobutton->setChecked(true);
ui->contaminant_protein_regexp_line_edit->setVisible(false);
ui->contaminant_database_listview->setVisible(true);
}
ui->contaminant_protein_regexp_line_edit->setText(p_project->getProteinStore().getRegexpContaminant().pattern());
this->setFastaFileList( p_project->getFastaFileStore().getFastaFileList());
ui->control_list_widget->setVisible(false);
_no_project = false;
}
void ContaminantWidget::setProjectContaminants(Project * p_project) {
qDebug() << "ContaminantWidget::setProjectContaminants begin";
if (ui->contaminant_file_radiobutton->isChecked()) {
QModelIndexList index_list = ui->contaminant_database_listview->selectionModel()->selectedIndexes();
p_project->getProteinStore().clearContaminants();
if (index_list.size() > 0) {
for (QModelIndex index :index_list) {
if (index.data(Qt::UserRole).canConvert<FastaFile *>()) {
FastaFile * p_fasta_file = index.data(Qt::UserRole).value<FastaFile *>();
p_fasta_file->setContaminants(p_project->getProteinStore());
}
else {
throw pappso::PappsoException(QObject::tr("can not convert to FastaFile index.data().canConvert<FastaFile *>()"));
}
}
}
if (_no_project) {
ui->control_list_widget->setVisible(true);
}
}
else {
p_project->getProteinStore().setRegexpContaminantPattern(ui->contaminant_protein_regexp_line_edit->text());
ui->control_list_widget->setVisible(false);
}
qDebug() << "ContaminantWidget::setProjectContaminants end";
}
void ContaminantWidget::doSelectContaminantSource() {
qDebug() << "ContaminantWidget::doSelectContaminantSource begin";
ui->contaminant_database_listview->setVisible(false);
ui->contaminant_protein_regexp_line_edit->setVisible(false);
if (ui->contaminant_file_radiobutton->isChecked()) {
ui->contaminant_database_listview->setVisible(true);
}
else {
ui->contaminant_protein_regexp_line_edit->setVisible(true);
}
qDebug() << "ContaminantWidget::doSelectContaminantSource end";
}
void ContaminantWidget::doSelectFastaFile() {
try {
QSettings settings;
QString default_fasta_location = settings.value("path/fastafiles_directory", "").toString();
QStringList filenames = QFileDialog::getOpenFileNames(this,tr("FASTA files"),default_fasta_location,
tr("FASTA files (*.fasta);;all files (*)") );
if (filenames.size() > 0) {
settings.setValue("path/fastafiles_directory", QFileInfo(filenames[0]).absolutePath());
}
std::vector<FastaFileSp> fasta_file_list;
for (QString filename :filenames) {
fasta_file_list.push_back(std::make_shared<FastaFile>(filename));
}
this->setFastaFileList(fasta_file_list);
}
catch (pappso::PappsoException & error) {
//QMessageBox::warning(this,
// tr("Error choosing identification result files : %1").arg(error.qwhat()), error);
}
}
void ContaminantWidget::doClearList() {
_p_fasta_str_li->removeRows( 0, _p_fasta_str_li->rowCount() );
}
src/gui/widgets/contaminant_widget/contaminantwidget.h
+ 11
− 2
View file @ 0894979a
...@@ -34,6 +34,7 @@ ...@@ -34,6 +34,7 @@
#include <QWidget> #include <QWidget>
#include <QStandardItemModel> #include <QStandardItemModel>
#include "../../../files/fastafile.h" #include "../../../files/fastafile.h"
#include "../../../core/project.h"
namespace Ui { namespace Ui {
...@@ -50,19 +51,27 @@ public: ...@@ -50,19 +51,27 @@ public:
void setRegexpContaminantPattern(const QString & pattern); void setRegexpContaminantPattern(const QString & pattern);
const QString getRegexpContaminant() const;
void setFastaFileList(std::vector<FastaFileSp> fasta_file_list); void setFastaFileList(std::vector<FastaFileSp> fasta_file_list);
void setProjectContaminants(Project * p_project);
void getProjectContaminants(const Project * p_project);
public slots: public slots:
void doSelectContaminantSource();
void doSelectFastaFile();
void doClearList();
signals: signals:
private: private:
Ui::ContaminantWidget *ui; Ui::ContaminantWidget *ui;
bool _no_project = true;
QStandardItemModel * _p_fasta_str_li; QStandardItemModel * _p_fasta_str_li;
std::vector<FastaFileSp> _fasta_file_list;
}; };
......
src/gui/workerthread.cpp
+ 3
− 2
View file @ 0894979a
...@@ -62,6 +62,7 @@ WorkerThread::WorkerThread(MainWindow * p_main_window) ...@@ -62,6 +62,7 @@ WorkerThread::WorkerThread(MainWindow * p_main_window)
connect(p_main_window, &MainWindow::operateXpipFile, this,&WorkerThread::doXpipFileLoad); connect(p_main_window, &MainWindow::operateXpipFile, this,&WorkerThread::doXpipFileLoad);
connect(p_main_window, &MainWindow::operateWritingXpipFile, this,&WorkerThread::doWritingXpipFile); connect(p_main_window, &MainWindow::operateWritingXpipFile, this,&WorkerThread::doWritingXpipFile);
connect(this, &WorkerThread::projectReady, p_main_window,&MainWindow::doProjectReady); connect(this, &WorkerThread::projectReady, p_main_window,&MainWindow::doProjectReady);
connect(this, &WorkerThread::loadingResultsFinished, p_main_window,&MainWindow::doLoadingResultsReady);
connect(p_main_window, &MainWindow::operateLoadingResults, this,&WorkerThread::doLoadingResults); connect(p_main_window, &MainWindow::operateLoadingResults, this,&WorkerThread::doLoadingResults);
...@@ -361,8 +362,8 @@ void WorkerThread::doLoadingResults(bool is_individual, AutomaticFilterParameter ...@@ -361,8 +362,8 @@ void WorkerThread::doLoadingResults(bool is_individual, AutomaticFilterParameter
emit loadingMessage(tr("filtering proteins")); emit loadingMessage(tr("filtering proteins"));
project_sp.get()->updateAutomaticFilters(param); project_sp.get()->updateAutomaticFilters(param);
qDebug() << "WorkerThread::doLoadingResults emit projectReady(project_sp) "; qDebug() << "WorkerThread::doLoadingResults emit loadingResultsFinished(project_sp) ";
emit projectReady(project_sp); emit loadingResultsFinished(project_sp);
} }
catch (pappso::PappsoException & error) { catch (pappso::PappsoException & error) {
......
src/gui/workerthread.h
+ 1
− 0
View file @ 0894979a
...@@ -72,6 +72,7 @@ public slots: ...@@ -72,6 +72,7 @@ public slots:
signals: signals:
void loadingMessage(QString message); void loadingMessage(QString message);
void projectReady(ProjectSp project_sp); void projectReady(ProjectSp project_sp);
void loadingResultsFinished(ProjectSp project_sp);
void projectNotReady(QString error); void projectNotReady(QString error);
void groupingFinished(); void groupingFinished();
void groupingOnIdentificationFinished(IdentificationGroup * p_identification_group); void groupingOnIdentificationFinished(IdentificationGroup * p_identification_group);
......
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