#include "py/python.hpp"
#include "qui/MussaWindow.hpp"
#include "mussa_exceptions.hpp"
+#include "version.hpp"
#include <QAction>
#include <QApplication>
#include <boost/filesystem/path.hpp>
#include <boost/filesystem/operations.hpp>
+#include <boost/filesystem/convenience.hpp>
namespace fs = boost::filesystem;
#include <boost/bind.hpp>
MussaWindow::MussaWindow(MussaRef analysis_, QWidget *parent) :
QMainWindow(parent),
analysis(analysis_),
- default_dir(QDir::home().absolutePath().toStdString(), fs::native),
+ default_dir(new QDir(QDir::home().absolutePath())),
motif_editor(0),
setup_analysis_dialog(new MussaSetupDialog(this)),
subanalysis_window(new SubanalysisWindow(analysis)),
- browser(new SequenceBrowserWidget(this)),
+ browser(new SequenceBrowserWidget(default_dir, this)),
mussaViewTB(new QToolBar("Path Views")),
zoom(new ZoomWidget),
threshold(new ThresholdWidget),
void MussaWindow::setupAssistant()
{
-#if defined(QT_ASSISTANT_FOUND)
+#if defined(QT_QTASSISTANT_FOUND)
QStringList manualAssistantArgs;
manualAssistantArgs = QStringList();
manualAssistantArgs << "-profile" << "./doc/manual/mussagl_manual.adp";
void MussaWindow::about()
{
- QString msg("Welcome to Multiple Species Sequence Analysis\n"
- "(c) 2005-2006 California Institute of Technology\n"
- "Tristan De Buysscher, Diane Trout\n");
- msg += "\n\r";
- msg += "OpenGL: ";
- msg += (char *)glGetString(GL_VERSION);
- msg += "\n";
- QMessageBox::about(this, tr("About mussa"), msg);
+ QString msg;
+ msg += "Welcome to Multiple Species Sequence Analysis\n";
+ msg += "(c) 2005-2006 California Institute of Technology\n";
+ msg += "Diane Trout, Tristan De Buysscher, Brandon King\n";
+ msg += "Version: ";
+ msg += mussa_version;
+ msg += "\n";
+ msg += "OpenGL: ";
+ msg += (char *)glGetString(GL_VERSION);
+ msg += "\n";
+ QMessageBox::about(this, tr("About mussa"), msg);
}
void MussaWindow::clear()
std::auto_ptr<QFileDialog> dialog(new QFileDialog(this));
dialog->setAcceptMode(QFileDialog::AcceptSave);
dialog->setFileMode(QFileDialog::AnyFile);
- dialog->setDirectory(QDir(default_dir.native_directory_string().c_str()));
+ dialog->setDirectory(*default_dir);
QStringList fileNames;
if (not dialog->exec()) {
return;
}
analysis->save(save_path);
- default_dir = (save_path / "..").normalize();
+ fs::path normalized_path = (save_path / "..").normalize();
+ default_dir->setPath(normalized_path.native_directory_string().c_str());
}
bool MussaWindow::isClearingAnalysisSafe()
void MussaWindow::loadMotifList()
{
- QString caption("Load a motif list");
+ QString caption("Mussa Load Motifs");
QString filter("Motif list(*.txt *.mtl)");
- QDir default_qdir(default_dir.native_directory_string().c_str());
QString path = QFileDialog::getOpenFileName(this,
caption,
- default_qdir.absolutePath(),
+ default_dir->absolutePath(),
filter);
// user hit cancel?
if (path.isNull())
try {
fs::path converted_path(path.toStdString(), fs::native);
analysis->load_motifs(converted_path);
- default_dir = converted_path.branch_path();
+ default_dir->setPath(converted_path.branch_path().native_directory_string().c_str());
emit changedMotifs();
} catch (runtime_error e) {
QString msg("Unable to load ");
msg += path;
msg += "\n";
msg += e.what();
- QMessageBox::warning(this, "Load Motifs", msg);
+ QMessageBox::warning(this, caption, msg);
}
- assert (analysis != 0);
}
void MussaWindow::saveMotifList()
{
- NotImplementedBox();
-}
+ QString caption("Mussa Save Motifs");
+ QString filter("Motif list(*.txt *.mtl)");
+ QString path = QFileDialog::getSaveFileName(this,
+ caption,
+ default_dir->absolutePath(),
+ filter);
+ // user hit cancel?
+ if (path.isNull())
+ return;
+ // try to load safely
+ try {
+ fs::path converted_path(path.toStdString(), fs::native);
+ if (fs::extension(converted_path).size() == 0) {
+ // no extension, so add one
+ converted_path = converted_path.string() + ".mtl";
+ }
+ analysis->save_motifs(converted_path);
+ default_dir->setPath(converted_path.branch_path().native_directory_string().c_str());
+ } catch (runtime_error e) {
+ QString msg("Unable to save ");
+ msg += path;
+ msg += "\n";
+ msg += e.what();
+ QMessageBox::warning(this, caption, msg);
+ }}
void MussaWindow::loadMupa()
{
QString caption("Load a mussa parameter file");
QString filter("Mussa Parameters (*.mupa)");
- QDir default_qdir(QDir(default_dir.native_directory_string().c_str()));
-
QString mupa_path = QFileDialog::getOpenFileName(
this,
caption,
- default_qdir.absolutePath(),
+ default_dir->absolutePath(),
filter
);
// user hit cancel?
setAnalysis(m);
updateTitle();
// grab the path ignoring the mupa file portion
- default_dir = converted_path.branch_path();
+ default_dir->setPath(converted_path.branch_path().native_directory_string().c_str());
} catch (mussa_load_error e) {
QString msg("Unable to load ");
msg += mupa_path;
void MussaWindow::loadSavedAnalysis()
{
- QDir default_qdir(QDir(default_dir.native_directory_string().c_str()));
QString caption("Load a previously run analysis");
QString muway_dir = QFileDialog::getExistingDirectory(
this,
caption,
- default_qdir.absolutePath()
+ default_dir->absolutePath()
);
// user hit cancel?
if (muway_dir.isNull())
// our current window is empty so load and replace.
setAnalysis(m);
updateTitle();
- default_dir = converted_path.branch_path();
+ default_dir->setPath(converted_path.branch_path().native_directory_string().c_str());
} else {
MussaWindow *win = new MussaWindow(m);
updateTitle();
- win->default_dir = converted_path.branch_path();
+ win->default_dir->setPath(converted_path.branch_path().native_directory_string().c_str());
win->show();
}
} catch (mussa_load_error e) {
void MussaWindow::showManual()
{
-#if QT_QTASSISTANT_FOUND
- manualAssistant->openAssistant();
+#if defined(QT_QTASSISTANT_FOUND)
+ if (manualAssistant) {
+ manualAssistant->openAssistant();
+ } else {
+ QMessageBox::warning(this,
+ tr("Mussa Help Error"),
+ tr("QtAssistant not setup correctly"),
+ QMessageBox::Ok,
+ QMessageBox::NoButton,
+ QMessageBox::NoButton);
+ }
#else
try {
boost::python::object webopen = get_py()["webbrowser.open"];
webopen("http://woldlab.caltech.edu/~king/mussagl_manual/");
} catch( boost::python::error_already_set ) {
PyErr_Print();
+ QMessageBox::warning(this,
+ tr("Mussa Help Error"),
+ tr("Unable to launch webbrowser"),
+ QMessageBox::Ok,
+ QMessageBox::NoButton,
+ QMessageBox::NoButton);
}
#endif //QT_QTASSISTANT_FOUND
}
"first"));
} else {
MussaAlignedWindowRef ma_win(
- new MussaAlignedWindow(analysis, selected_paths, subanalysis_window)
+ new MussaAlignedWindow(analysis, default_dir, selected_paths, subanalysis_window)
);
aligned_windows.push_back(ma_win);
projects / mussa.git / blobdiff