diff --git a/src/CMakeLists.txt b/src/CMakeLists.txt index 76fbd5282ea3bbefe539d02ca0972486fcc41dfd..93466673362b43e4b672958ddbce8ed1e9974baa 100644 --- a/src/CMakeLists.txt +++ b/src/CMakeLists.txt @@ -27,11 +27,11 @@ SET(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${Qt5Xml_EXECUTABLE_COMPILE_FLAGS} ${Qt5 #sudo apt-get install libpappsomspp-dev -FIND_PACKAGE( Pappsomspp REQUIRED ) -# SET (PAPPSOMSPP_DIR "/home/olivier/eclipse/git/pappsomspp") +#FIND_PACKAGE( Pappsomspp REQUIRED ) + SET (PAPPSOMSPP_DIR "/home/olivier/eclipse/git/pappsomspp") # SET (PAPPSOMSPP_DIR "/home/langella/developpement/git/pappsomspp") -# SET (PAPPSOMSPP_INCLUDE_DIR "${PAPPSOMSPP_DIR}/src") -# SET (PAPPSOMSPP_QT4_LIBRARY "${PAPPSOMSPP_DIR}/cbuild/src/libpappsomspp-qt4.so") + SET (PAPPSOMSPP_INCLUDE_DIR "${PAPPSOMSPP_DIR}/src") + SET (PAPPSOMSPP_QT4_LIBRARY "${PAPPSOMSPP_DIR}/cbuild/src/libpappsomspp-qt4.so") set(CMAKE_MODULE_PATH ${CMAKE_SOURCE_DIR}/cmake_modules) diff --git a/src/gui/peptide_detail_view/peptide_detail_view.ui b/src/gui/peptide_detail_view/peptide_detail_view.ui index 7fdafb54a82375e7cfbae802ccfad049f818f9cd..8cdc96953aa0cefbf65b4dcc65869a7d7f13c81a 100644 --- a/src/gui/peptide_detail_view/peptide_detail_view.ui +++ b/src/gui/peptide_detail_view/peptide_detail_view.ui @@ -33,6 +33,9 @@ <property name="text"> <string>sequence</string> </property> + <property name="textInteractionFlags"> + <set>Qt::LinksAccessibleByMouse|Qt::TextSelectableByKeyboard|Qt::TextSelectableByMouse</set> + </property> </widget> </item> </layout> @@ -82,6 +85,9 @@ <property name="text"> <string>TextLabel</string> </property> + <property name="textInteractionFlags"> + <set>Qt::LinksAccessibleByMouse|Qt::TextSelectableByKeyboard|Qt::TextSelectableByMouse</set> + </property> </widget> </item> </layout> @@ -100,6 +106,9 @@ <property name="text"> <string>TextLabel</string> </property> + <property name="textInteractionFlags"> + <set>Qt::LinksAccessibleByMouse|Qt::TextSelectableByKeyboard|Qt::TextSelectableByMouse</set> + </property> </widget> </item> </layout> @@ -122,10 +131,17 @@ </item> </layout> </item> + <item> + <widget class="QPushButton" name="pushButton"> + <property name="text"> + <string>Open in peptide viewer</string> + </property> + </widget> + </item> </layout> </item> <item> - <widget class="QWidget" name="file_not_found"> + <widget class="QWidget" name="file_not_found"> <layout class="QFormLayout" name="file_not_found_layout"> <item row="0" column="0"> <widget class="QLabel" name="mz_data_dir_label"> @@ -142,7 +158,7 @@ </widget> </item> </layout> - </widget> + </widget> </item> <item> <layout class="QHBoxLayout" name="horizontalLayout_2"> @@ -175,7 +191,7 @@ <x>0</x> <y>0</y> <width>826</width> - <height>23</height> + <height>25</height> </rect> </property> </widget> @@ -206,8 +222,25 @@ </hint> </hints> </connection> + <connection> + <sender>pushButton</sender> + <signal>clicked()</signal> + <receiver>PeptideDetailView</receiver> + <slot>openInPeptideViewer()</slot> + <hints> + <hint type="sourcelabel"> + <x>754</x> + <y>62</y> + </hint> + <hint type="destinationlabel"> + <x>850</x> + <y>222</y> + </hint> + </hints> + </connection> </connections> <slots> <slot>chooseDefaultMzDataDir()</slot> + <slot>openInPeptideViewer()</slot> </slots> </ui> diff --git a/src/gui/peptide_detail_view/peptidewindow.cpp b/src/gui/peptide_detail_view/peptidewindow.cpp index be1c0ee7cfd2c0d1ac33ec25105187ba18b4faf6..92026610ff000521d4c742d69c12afbb67964f32 100644 --- a/src/gui/peptide_detail_view/peptidewindow.cpp +++ b/src/gui/peptide_detail_view/peptidewindow.cpp @@ -30,6 +30,7 @@ #include <QFileDialog> #include <QSettings> #include <QDebug> +#include <QProcess> void SpectrumSpLoaderThread::doLoadSpectrumSp (PeptideMatch * p_peptide_match) { @@ -156,6 +157,15 @@ void PeptideWindow::chooseDefaultMzDataDir() { } +void PeptideWindow::openInPeptideViewer() { + QString program = "/home/olivier/eclipse/git/pappsoms-tools/cbuild/src/gui/pt-peptideviewer"; + QStringList arguments; + arguments << _p_peptide_match->getPeptideXtpSp().get()->toString() << QString("%1").arg(_p_peptide_match->getCharge()) << _p_peptide_match->getMsRunP()->getFilename() << QString("%1").arg(_p_peptide_match->getScan()); + + qDebug() << "PeptideWindow::openInPeptideViewer " << program << " " << arguments.join(" "); + QProcess *myProcess = new QProcess(this); + myProcess->start(program, arguments); +} void PeptideWindow::doSpectrumSpReady(SpectrumSp spectrum_sp, QString error) { qDebug() << "PeptideWindow::doSpectrumSpReady begin"; diff --git a/src/gui/peptide_detail_view/peptidewindow.h b/src/gui/peptide_detail_view/peptidewindow.h index a3ab9eba97ce8b9a443facea8bbb5453958a18da..2aa31d8e5b307c0f78932b7739aacc5298038565 100644 --- a/src/gui/peptide_detail_view/peptidewindow.h +++ b/src/gui/peptide_detail_view/peptidewindow.h @@ -77,6 +77,7 @@ signals: protected slots: void doSpectrumSpReady(pappso::SpectrumSp spectrum_sp, QString error); void chooseDefaultMzDataDir(); + void openInPeptideViewer(); protected : void updateDisplay(); diff --git a/src/utils/readspectrum.cpp b/src/utils/readspectrum.cpp index 1137dec0917c97fc631b1765291e0a1ea1f12384..ecb9e120d79106d89ad38f665433e802d777b00f 100644 --- a/src/utils/readspectrum.cpp +++ b/src/utils/readspectrum.cpp @@ -272,11 +272,11 @@ pappso::SpectrumSp SpectrumStore::getSpectrumSpFromMsRunSp(MsRunSp msrun, unsign QString mz_file = findMzFile(msrun.get()->getFilename()); if (mz_file.isEmpty()) { qDebug() << "SpectrumStore::getSpectrumSpFromMsRunIdSp ERROR file not found " << msrun.get()->getFilename(); - throw pappso::ExceptionNotFound(QObject::tr("mz data \"%1\" file not found").arg(msrun.get()->getFilename())); + throw pappso::ExceptionNotFound(QObject::tr("mz data \"%1\" file not found").arg(msrun.get()->getFilename())); //return spectrum; } - p_msdatafile = getPwizMSDataFile(mz_file); msrun.get()->setFilename(mz_file); + p_msdatafile = getPwizMSDataFile(mz_file); _map_msrun_msdatafile.insert(std::pair<MsRunSp, pwiz::msdata::MSDataFile *>(msrun, p_msdatafile)); } else {