use real msrun xml id

src/core/automaticfilterparameters.h

@@ -22,8 +22,7 @@
  *implementation
  ******************************************************************************/
 
-#ifndef AUTOMATICFILTERPARAMETERS_H
-#define AUTOMATICFILTERPARAMETERS_H
+#pragma once
 #include <pappsomspp/types.h>
 
 class AutomaticFilterParameters
@@ -37,9 +36,10 @@ class AutomaticFilterParameters
   void setFilterPeptideEvalue(pappso::pappso_double evalue);
   void setFilterProteinEvalue(pappso::pappso_double evalue);
   void setFilterMinimumPeptidePerMatch(unsigned int number);
-  
+
   /** @brief filter on peptide reproducibility accross MS runs
-   * if a peptide is observed in less MS runs than this value, the peptide is not valid
+   * if a peptide is observed in less MS runs than this value, the peptide is
+   * not valid
    */
   void setFilterPeptideObservedInLessSamplesThan(unsigned int number);
   void setFilterCrossSamplePeptideNumber(bool cross);
@@ -61,5 +61,3 @@ class AutomaticFilterParameters
   unsigned int m_filter_peptide_observed_in_less_samples_than = 1;
   bool _filter_is_cross_sample_peptide_number                 = false;
 };
-
-#endif // AUTOMATICFILTERPARAMETERS_H

src/core/identification_sources/identificationdatasource.h

@@ -21,8 +21,7 @@
  *     Olivier Langella <Olivier.Langella@moulon.inra.fr> - initial API and
  *implementation
  ******************************************************************************/
-#ifndef IDENTIFICATIONDATASOURCE_H
-#define IDENTIFICATIONDATASOURCE_H
+#pragma once
 
 
 #include <pappsomspp/massspectrum/massspectrum.h>
@@ -152,5 +151,3 @@ class IdentificationDataSource
 
   PeptideEvidenceStore _peptide_evidence_store;
 };
-
-#endif // IDENTIFICATIONDATASOURCE_H

src/output/masschroqml.cpp

@@ -446,7 +446,10 @@ MassChroQml::writeAlignments()
   _output_stream->writeStartElement("align");
   _output_stream->writeAttribute("group_id", "fractiona1");
   _output_stream->writeAttribute("method_id", "my_ms2");
-  _output_stream->writeAttribute("reference_data_id", "msruna1");
+  std::vector<MsRunSp> msrun_list =
+    _sp_project.get()->getMsRunStore().getMsRunList();
+  _output_stream->writeAttribute("reference_data_id",
+                                 msrun_list.front().get()->getXmlId());
   _output_stream->writeEndElement();
   //</alignments>
   _output_stream->writeEndElement();

src/output/masschroqprm.h

@@ -28,8 +28,7 @@
  *implementation
  ******************************************************************************/
 
-#ifndef MASSCHROQPRM_H
-#define MASSCHROQPRM_H
+#pragma once
 
 #include <QXmlStreamWriter>
 #include <QFile>
@@ -56,4 +55,3 @@ class MassChroqPrm
   IdentificationGroup *_p_identification_group;
 };
 
-#endif // MASSCHROQPRM_H