#1 solved by accepting obsolete...

#1 solved by accepting obsolete parameters in the read step

src/core/tandem_run/tandemparameters.cpp

@@ -129,14 +129,13 @@ TandemParameters::getValue(const QString &label) const
           .arg(label)
           .arg(_method_name));
     }
-  qDebug() << __FILE__ << " " << __FUNCTION__ << " " << __LINE__;
+  qDebug();
   return it.value();
 }
 void
 TandemParameters::setParamLabelValue(const QString &label, const QString &value)
 {
-  qDebug() << __FILE__ << " " << __FUNCTION__ << " " << __LINE__ << " "
-           << label;
+  qDebug() << label;
   // list path
   //<note type="input" label="list path, default
   // parameters">/gorgone/pappso/tmp/temp_condor_job24872841484824316495370334631825647/QExactive_analysis_FDR_nosemi.xml</note>
@@ -147,8 +146,7 @@ TandemParameters::setParamLabelValue(const QString &label, const QString &value)
       return;
     }
 
-  qDebug() << __FILE__ << " " << __FUNCTION__ << " " << __LINE__ << " "
-           << label;
+  qDebug() << label;
   if((label == "spectrum, parent monoisotopic mass error units") ||
      (label == "spectrum, fragment monoisotopic mass error units"))
     {
@@ -189,7 +187,9 @@ TandemParameters::setParamLabelValue(const QString &label, const QString &value)
           (label == "protein, homolog management") ||
           (label == "protein, use minimal annotations") ||
           (label == "protein, use annotations") ||
-          (label == "scoring, pluggable scoring"))
+          (label == "scoring, pluggable scoring") ||
+          (label == "output, mzid") ||
+          (label == "spectrum, use noise suppression"))
     {
       if((value != "yes") && (value != "no"))
         {
@@ -260,7 +260,13 @@ TandemParameters::setParamLabelValue(const QString &label, const QString &value)
           (label == "scoring, algorithm") || (label == "protein, taxon") ||
           (label == "refine, sequence path") || (label == "output, log path") ||
           (label == "output, message") || (label == "output, sequence path") ||
-          (label == "output, path"))
+          (label == "output, path") ||
+          (label == "residue, potential modification mass 1") ||
+          (label == "residue, potential modification mass 2") ||
+          (label == "residue, potential modification mass 3") ||
+          (label == "residue, potential modification motif 1") ||
+          (label == "residue, potential modification motif 2") ||
+          (label == "residue, potential modification motif 3"))
     {
       // string
     }

src/files/tandemparametersfile.h

@@ -28,8 +28,7 @@
  *implementation
  ******************************************************************************/
 
-#ifndef TANDEMPARAMETERSFILE_H
-#define TANDEMPARAMETERSFILE_H
+#pragma once
 
 #include <QFileInfo>
 #include <QXmlStreamWriter>
@@ -74,5 +73,3 @@ class TandemParametersFile
   QFileInfo _param_source;
   bool m_isTandemParameterFile = false;
 };
-
-#endif // TANDEMPARAMETERSFILE_H

src/input/xtandemparamsaxhandler.h

@@ -28,8 +28,7 @@
  *implementation
  ******************************************************************************/
 
-#ifndef XTANDEMPARAMSAXHANDLER_H
-#define XTANDEMPARAMSAXHANDLER_H
+#pragma once
 
 #include <QXmlDefaultHandler>
 #include <vector>
@@ -62,6 +61,7 @@ class XtandemParamSaxHandler : public QXmlDefaultHandler
   QString errorString() const;
 
   bool isTandemParameter() const;
+
   private:
   bool startElement_note(QXmlAttributes attributes);
   bool endElement_note();
@@ -76,5 +76,3 @@ class XtandemParamSaxHandler : public QXmlDefaultHandler
   QString _current_label;
   bool m_isTandemParameter = false;
 };
-
-#endif // XTANDEMPARAMSAXHANDLER_H

win64/work.cmake

@@ -8,9 +8,9 @@
 
 set(PAPPSOMSPP_QT5_FOUND 1)
 set(PAPPSOMSPP_WIDGET_QT5_FOUND 1)
-set(PAPPSOMSPP_INCLUDE_DIR "/home/trenne/developpement/git/pappsomspp/src")
-set(PAPPSOMSPP_QT5_LIBRARY "/home/trenne/developpement/git/pappsomspp/cbuild/src/libpappsomspp-qt5.so")
-set(PAPPSOMSPP_WIDGET_QT5_LIBRARY "/home/trenne/developpement/git/pappsomspp/cbuild/src/pappsomspp/widget/libpappsomspp-widget-qt5.so")
+set(PAPPSOMSPP_INCLUDE_DIR "/home/langella/developpement/git/pappsomspp/src")
+set(PAPPSOMSPP_QT5_LIBRARY "/home/langella/developpement/git/pappsomspp/cbuild/src/libpappsomspp-qt5.so")
+set(PAPPSOMSPP_WIDGET_QT5_LIBRARY "/home/langella/developpement/git/pappsomspp/cbuild/src/pappsomspp/widget/libpappsomspp-widget-qt5.so")