Package eu.isas.peptideshaker.gui

Examples of eu.isas.peptideshaker.gui.MatchValidationDialog

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                String key = psmKeys.get(tableModel.getViewIndex(row));
                Identification identification = peptideShakerGUI.getIdentification();
                PSMaps pSMaps = new PSMaps();
                pSMaps = (PSMaps) identification.getUrParam(pSMaps);
                try {
                    MatchValidationDialog matchValidationDialog = new MatchValidationDialog(peptideShakerGUI, peptideShakerGUI.getExceptionHandler(),
                            identification, peptideShakerGUI.getIdentificationFeaturesGenerator(), pSMaps.getPsmSpecificMap(), key,
                            peptideShakerGUI.getSearchParameters(), peptideShakerGUI.getAnnotationPreferences(), peptideShakerGUI.getSequenceMatchingPreferences());
                    if (matchValidationDialog.isValidationChanged()) {
                        updatePsmPanelTitle();
                        peptidesPanel.repaint();
                        proteinsLayeredPanel.repaint();
                    }
                } catch (Exception e) {
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                if (column == proteinTable.getColumn("").getModelIndex() && evt != null && evt.getButton() == MouseEvent.BUTTON1) {
                    Identification identification = peptideShakerGUI.getIdentification();
                    PSMaps pSMaps = new PSMaps();
                    pSMaps = (PSMaps) identification.getUrParam(pSMaps);
                    try {
                        MatchValidationDialog matchValidationDialog = new MatchValidationDialog(peptideShakerGUI, peptideShakerGUI.getExceptionHandler(),
                                identification, peptideShakerGUI.getIdentificationFeaturesGenerator(), pSMaps.getProteinMap(), proteinKey,
                                peptideShakerGUI.getSearchParameters(), peptideShakerGUI.getAnnotationPreferences(), peptideShakerGUI.getSequenceMatchingPreferences());
                        if (matchValidationDialog.isValidationChanged()) {
                            updateProteinPanelTitle();
                        }
                    } catch (Exception e) {
                        peptideShakerGUI.catchException(e);
                    }
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            if (column == peptideTable.getColumn("").getModelIndex() && evt != null && evt.getButton() == MouseEvent.BUTTON1) {
                Identification identification = peptideShakerGUI.getIdentification();
                PSMaps pSMaps = new PSMaps();
                pSMaps = (PSMaps) identification.getUrParam(pSMaps);
                try {
                    MatchValidationDialog matchValidationDialog = new MatchValidationDialog(peptideShakerGUI, peptideShakerGUI.getExceptionHandler(),
                            identification, peptideShakerGUI.getIdentificationFeaturesGenerator(), pSMaps.getPeptideSpecificMap(), peptideKey,
                            peptideShakerGUI.getSearchParameters(), peptideShakerGUI.getAnnotationPreferences(), peptideShakerGUI.getSequenceMatchingPreferences());
                    if (matchValidationDialog.isValidationChanged()) {
                        updateProteinPanelTitle();
                        updatePeptidePanelTitle();
                    }
                } catch (Exception e) {
                    peptideShakerGUI.catchException(e);
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Related Classes of eu.isas.peptideshaker.gui.MatchValidationDialog

  • com.compomics.util.experiment.biology.Peptide
  • com.compomics.util.experiment.identification.matches.PeptideMatch
  • com.compomics.util.experiment.identification.matches.SpectrumMatch
  • com.compomics.util.gui.renderers.AlignedListCellRenderer
  • eu.isas.peptideshaker.gui.tabpanels.OverviewPanel
  • eu.isas.peptideshaker.myparameters.PSMaps
  • eu.isas.peptideshaker.myparameters.PSParameter
  • eu.isas.peptideshaker.scoring.MatchValidationLevel
  • eu.isas.peptideshaker.scoring.PeptideSpecificMap
  • eu.isas.peptideshaker.scoring.ProteinMap
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