first mzid read

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)

src/core/peptidematch.cpp

@@ -22,6 +22,7 @@
 ******************************************************************************/
 
 #include "peptidematch.h"
+#include <pappsomspp/pappsoexception.h>
 
 std::hash<std::string> PeptideMatch::_hash_fn;
 
@@ -182,6 +183,9 @@ unsigned int PeptideMatch::getCharge() const {
 }
 
 const PeptideXtpSp & PeptideMatch::getPeptideXtpSp() const {
+    //if (_sp_grp_peptide.get() == nullptr) {
+    //    throw pappso::PappsoException(QObject::tr("Peptide is null in %1 %2").arg(_msrunid_sp->getXmlId()).arg(this->getScan()));
+    //}
     return _peptide_sp;
 }
 

src/input/identificationpwizreader.cpp

@@ -195,7 +195,7 @@ void IdentificationPwizReader::read(
                                                               .arg(QString::fromStdString(spid_item.get()->id))
                                                              );
                         }
-                        p_peptide_match->setPeptideXtpSp(it_pep->second);
+                        p_peptide_match_from_evidence->setPeptideXtpSp(it_pep->second);
 
                         auto it = map_id2protein.find(QString::fromStdString(peptide_evidence_sp.get()->dbSequencePtr.get()->id));
                         if (it == map_id2protein.end()) {