take into account old tandem reverse style

src/input/xtandemsaxhandler.cpp

@@ -157,27 +157,6 @@ bool XtandemSaxHandler::startElement_note(QXmlAttributes attributes) {
     return is_ok;
 }
 
-bool XtandemSaxHandler::startElement_protein(QXmlAttributes attributes) {
-//<protein expect="-704.6" id="1976.1" uid="195701" label="GRMZM2G083841_P01 P04711 Phosphoenolpyruvate carboxylase 1 (PEPCase 1)(PEPC 1)(EC..." sumI="9.36" >
-    bool is_ok = true;
-    //qDebug() << "startElement_protein begin";
-    QString accession = attributes.value("label").simplified().split(" ", QString::SkipEmptyParts).at(0);
-    //qDebug() << "startElement_protein accession" << accession;
-    _p_protein_match = _p_identification_group->getProteinMatchInstance(accession);
-
-    //qDebug() << "startElement_protein p_protein_match 1 " << _p_protein_match;
-    _current_protein.setAccession(accession);
-    _p_protein_match->setChecked(false);
-    //qDebug() << "startElement_protein p_protein_match 3 " << _p_protein_match;
-    ProteinXtpSp sp_xtp_protein = _current_protein.makeProteinXtpSp();
-    _p_protein_match->setProteinXtpSp(_p_project->getProteinStore().getInstance(sp_xtp_protein));
-    _p_protein_match->setChecked(true);
-
-    //qDebug() << "startElement_protein end" ;
-    return is_ok;
-}
-
-
 bool XtandemSaxHandler::startElement_file(QXmlAttributes attributes) {
     bool is_ok = true;
     //<file type="peptide" URL="/gorgone/pappso/formation/TD/Database/Genome_Z_mays_5a.fasta"/>
@@ -374,9 +353,9 @@ bool XtandemSaxHandler::endElement_note() {
             _current_protein.setAccession(QString("%1%2").arg(_current_protein.getAccession()).arg(":reversed"));
         }
         //for older versions < 2013.09.01.1
-        if (!_p_protein_match->getProteinXtpSp().get()->getAccession().endsWith("|reversed") && _p_protein_match->getProteinXtpSp().get()->getDescription().endsWith("|reversed")) {
+        if (!_current_protein.getAccession().endsWith("|reversed") && _current_protein.getDescription().endsWith("|reversed")) {
             //to fit most cases, just check that the :reversed chars added by X!Tandem are not in the description. if so, then add it too in the accession
-            _p_protein_match->getProteinXtpSp().get()->setAccession(QString("%1%2").arg(_p_protein_match->getProteinXtpSp().get()->getAccession()).arg("|reversed"));
+            _current_protein.setAccession(QString("%1%2").arg(_current_protein.getAccession()).arg("|reversed"));
         }
 
        //qDebug() << "startElement_protein accession" << accession;