Deprecated API


Contents
Deprecated Methods
com.compomics.util.gui.spectrum.SpectrumPanel.determineColorOfPeak(String)
          it is advised to use methods based on the ion type rather than on the peak label 
com.compomics.util.gui.spectrum.SpectrumPanel.determineFragmentIonColor(String)
          use the method based on the Ion class instead 
com.compomics.util.gui.spectrum.SpectrumPanel.filterAnnotations(Vector, HashMap>, ArrayList, boolean, boolean, boolean)
          don't use method based on the peak labels but on the data type 
com.compomics.util.experiment.identification.matches.IonMatch.getError()
          replaced by getAbsoluteError() and getRelativeError() 
com.compomics.util.gui.dialogs.ProgressDialogX.setIntermidiate(boolean)
          Replaced by setIndeterminate, from utilities 3.1.17. 
 

Deprecated Constructors
com.compomics.util.gui.spectrum.SequenceFragmentationPanel(String, ArrayList, boolean, boolean, HashMap, HashMap)
          use the panel with ion selection instead 
 



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