Package cysbml

Examples of cysbml.SBMLGraphReader

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    return pass;
  }

  /** Gets the SBML Graph Reader. */
  public GraphReader getReader(String fileName) {
      return new SBMLGraphReader(fileName);
  }
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      }
      else{
        InputStream instream = new ByteArrayInputStream(sbml.getBytes("UTF-8"));
        taskMonitor.setPercentCompleted(40);
        taskMonitor.setStatus("Creating Cytoscape network from SBML ...");
        Cytoscape.createNetwork(new SBMLGraphReader(instream),true, null);
      }
    } catch (Exception e) {
      e.printStackTrace();
    } 
    taskMonitor.setPercentCompleted(100);
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   * Uses the CySBMLGraphReader with the given SBML file.
   */
  public boolean performTest(){
    boolean success = false;
    try {
      SBMLGraphReader reader = new SBMLGraphReader(filename);
      reader.read();
      Cytoscape.getCurrentNetwork().getIdentifier();
      //reader.doPostProcessing(Cytoscape.getCurrentNetwork());
     
      // Destroy the network nodes
      for (Object node : Cytoscape.getCyNodesList()) {
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Related Classes of cysbml.SBMLGraphReader

  • cysbml.biomodel.LoadBioModelTask
  • cysbml.grn.GRNGraphReader
  • cysbml.gui.NavigationPanel
  • cysbml.SBMLFilter
  • cysbml.sbmltest.SingleCase
  • cytoscape.CyEdge
  • cytoscape.CyNode
  • cytoscape.data.CyAttributes
  • cytoscape.layout.CyLayoutAlgorithm
  • cytoscape.view.CyNetworkView
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