Package org.moltools.apps.probemaker

Examples of org.moltools.apps.probemaker.ProbeAnalysisTask

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//  Design
    pd = new DefaultProbeDesigner(new PairwiseTagAllocator());
    pm.getProbeDesignTask(false, false, null, new DefaultNamingScheme(), new AllAcceptor(), new NoSelector(), pd, new DefaultTSSPairDesigner(new DefaultTSSConstructor()), eh).run();           
   
    new ProbeAnalysisTask(pm.getProject(),null).run();
  }
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//  Design
    pd = new DefaultProbeDesigner(new PairwiseTagAllocator());
    pm.getProbeDesignTask(false, false,  true, new AllAcceptor(), new NoSelector(), pd, new DefaultTSSConstructor(), eh).run();           
   
    new ProbeAnalysisTask(pm.getProject(),null).run();
  }
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  public void testMfold() throws InstantiationException, IllegalAccessException {
    m.setData(DINAMeltSecStructModule.KEY_NA_CONC,new Double(0.01));
    m.setData(DINAMeltSecStructModule.KEY_DG_LIMIT,new Double(-7.5));
    m.setData(DINAMeltSecStructModule.KEY_DG_SPAN,new Double(2));
   
    new ProbeAnalysisTask(project,null).run();
    Probe p1 = project.getProbes().getSequenceAt(0);
    assertEquals(ProbeMakerConstants.OK_QUALITY,ProbeMakerPropertyUtils.getRank(p1));
    m.setData(DINAMeltSecStructModule.KEY_NA_CONC,new Double(1));
    new ProbeAnalysisTask(project,null).run();
    p1 = project.getProbes().getSequenceAt(0);
    assertEquals(ProbeMakerConstants.BAD_QUALITY,ProbeMakerPropertyUtils.getRank(p1));

  }
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Related Classes of org.moltools.apps.probemaker.ProbeAnalysisTask

  • net.sf.apptools.utils.HTMLLogWriter
  • org.moltools.apps.probemaker.design.Analyzer
  • org.moltools.apps.probemaker.design.CandidateAnalysisModule
  • org.moltools.apps.probemaker.seq.Probe
  • org.moltools.apps.probemaker.test.DINAMeltModuleTest
  • org.moltools.apps.probemaker.test.ProjectIOTest
  • org.moltools.design.calc.ApproximateMeltingPointCalculator
  • org.moltools.design.calc.NNMeltingPointCalculator
  • java.util.Date
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