xpip is now labeled compliant : to test

src/input/xtpxpipsaxhandler.cpp

@@ -95,6 +95,9 @@ bool XtpXpipSaxHandler::startElement(const QString & namespaceURI, const QString
         else if (qName == "counts") {
             is_ok = startElement_counts(attributes);
         }
+        else if (qName == "label_method") {
+            is_ok = startElement_label_method(attributes);
+        }
         //<sample value="P6_08_10"/>
         else if (qName == "msrun") {
             is_ok = startElement_msrun(attributes);
@@ -190,6 +193,16 @@ bool XtpXpipSaxHandler::endElement(const QString & namespaceURI, const QString &
     return is_ok;
 }
 
+bool XtpXpipSaxHandler::startElement_label_method(QXmlAttributes attributes) {
+//    <label_method id="dimethyl">
+    qDebug() << "startElement_label_method ";
+    LabelingMethod method(attributes.value("id").simplified());
+    _sp_labeling_method = method.makeLabelingMethodSp();
+    _p_project->setLabelingMethodSp(_sp_labeling_method);
+    qDebug() << "startElement_label_method end" ;
+    return true;
+}
+
 bool XtpXpipSaxHandler::startElement_counts(QXmlAttributes attributes) {
 //    <counts proteins="6019" peptides="6194" peptide_evidences="7123" protein_matches="6019"/>
     qDebug() << "startElement_counts ";
@@ -317,7 +330,7 @@ bool XtpXpipSaxHandler::startElement_identification_source(QXmlAttributes attrib
     _sp_current_identification_source->setMsRunSp(_map_msruns.at(attributes.value("msrun_id").simplified()));
     qDebug() << "startElement_identification_source setIdentificationEngineVersion";
     _sp_current_identification_source->setIdentificationEngineVersion(attributes.value("version"));
-    
+
     for (const QString & fasta_id : attributes.value("fasta_ids").split(" ")) {
         _sp_current_identification_source.get()->addFastaFile(_map_fasta_files.at(fasta_id));
     }
@@ -501,6 +514,11 @@ bool XtpXpipSaxHandler::endElement_peptide() {
     qDebug() << "endElement_peptide ";
     _current_peptide_sp = _p_project->getPeptideStore().getInstance(_current_peptide_sp);
     _map_peptides.insert(std::pair<QString, PeptideXtpSp>(_current_id, _current_peptide_sp));
+
+    if (_sp_labeling_method.get() != nullptr) {
+        _current_peptide_sp.get()->applyLabelingMethod(_sp_labeling_method);
+    }
+
     _current_peptide_sp = nullptr;
 
     _count_peptides++;

src/input/xtpxpipsaxhandler.h

@@ -84,6 +84,7 @@ private:
     bool startElement_param(QXmlAttributes attributes);
     bool startElement_stat(QXmlAttributes attributes);
     bool startElement_counts(QXmlAttributes attributes);
+    bool startElement_label_method(QXmlAttributes attributes);
     
     //bool endElement_identification();
     bool endElement_sequence();
@@ -118,6 +119,7 @@ private:
     ProteinXtpSp _sp_current_protein;
     PeptideXtpSp _current_peptide_sp;
     IdentificationDataSourceSp _sp_current_identification_source;
+    LabelingMethodSp _sp_labeling_method;
     MsRunSp _sp_msrun;
     std::map<QString, PeptideXtpSp> _map_peptides;
     bool _is_xtpcpp_xpip = false;