Package com.compomics.util.experiment.identification.ptm

Examples of com.compomics.util.experiment.identification.ptm.PtmtableContent.addAll()

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                tempContent = PtmtableContent.getPTMTableContent(peptide, ptm, nPTM, spectrum, annotationPreferences.getIonTypes(),
                        annotationPreferences.getNeutralLosses(), annotationPreferences.getValidatedCharges(),
                        spectrumMatch.getBestPeptideAssumption().getIdentificationCharge().value,
                        annotationPreferences.getFragmentIonAccuracy(), spectrum.getIntensityLimit(annotationPreferences.getAnnotationIntensityLimit()));
                tempContent.normalize();
                tableContent.addAll(tempContent);
            } catch (Exception e) {
                peptideShakerGUI.catchException(e);
            }
        }
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                tempContent = PtmtableContent.getPTMTableContent(peptide, ptm, nPTM, spectrum, annotationPreferences.getIonTypes(),
                        annotationPreferences.getNeutralLosses(), annotationPreferences.getValidatedCharges(),
                        spectrumMatch.getBestPeptideAssumption().getIdentificationCharge().value,
                        annotationPreferences.getFragmentIonAccuracy(), spectrum.getIntensityLimit(annotationPreferences.getAnnotationIntensityLimit()));
                tempContent.normalize();
                tableContent.addAll(tempContent);
            } catch (Exception e) {
                peptideShakerGUI.catchException(e);
            }
        }
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