Package net.sf.mzmine.taskcontrol

Examples of net.sf.mzmine.taskcontrol.Task

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    PeakList[] peakLists = parameters.getParameter(
        PeakExtenderParameters.peakLists).getValue();

    for (final PeakList peakList : peakLists) {
      Task newTask = new PeakExtenderTask(peakList, parameters);
      tasks.add(newTask);
    }

    return ExitCode.OK;
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      @Nonnull Collection<Task> tasks) {
    PeakList peakLists[] = parameters.getParameter(
        FormulaPredictionPeakListParameters.PEAK_LISTS).getValue();

    for (PeakList peakList : peakLists) {
      Task newTask = new FormulaPredictionPeakListTask(peakList,
          parameters);
      tasks.add(newTask);
    }
    return ExitCode.OK;
  }
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    PeakList[] peakLists = parameters.getParameter(
        SameRangeGapFillerParameters.peakLists).getValue();

    for (PeakList peakList : peakLists) {
      Task newTask = new SameRangeTask(peakList, parameters);
      tasks.add(newTask);
    }

    return ExitCode.OK;
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    PeakList peakLists[] = parameters.getParameter(
        GPLipidSearchParameters.peakLists).getValue();

    for (PeakList peakList : peakLists) {
      Task newTask = new GPLipidSearchTask(parameters, peakList);
      tasks.add(newTask);
    }

    return ExitCode.OK;
  }
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      @Nonnull Collection<Task> tasks) {

    PeakList[] peakLists = parameters.getParameter(
        RansacAlignerParameters.peakLists).getValue();

    Task task = new RansacAlignerTask(peakLists, parameters);

    tasks.add(task);

    return ExitCode.OK;
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    PeakList[] peakLists = parameters.getParameter(
        DuplicateFilterParameters.peakLists).getValue();

    for (PeakList peakList : peakLists) {
      Task newTask = new DuplicateFilterTask(peakList, parameters);
      tasks.add(newTask);
    }

    return ExitCode.OK;
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  @Override
  @Nonnull
  public ExitCode runModule(@Nonnull ParameterSet parameters,
      @Nonnull Collection<Task> tasks) {
    Task newTask = new PathAlignerTask(parameters);
    tasks.add(newTask);
    return ExitCode.OK;
  }
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      @Nonnull Collection<Task> tasks) {

    PeakList peakLists[] = parameters.getParameter(
        StandardCompoundNormalizerParameters.peakList).getValue();
    for (PeakList peakList : peakLists) {
      Task newTask = new StandardCompoundNormalizerTask(peakList,
          parameters);
      tasks.add(newTask);
    }

    return ExitCode.OK;
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    logger.info("registered peakLists: " + peakLists);

    for (PeakList peakList : peakLists) {
      logger.info("working on peakList: " + peakList);

      Task newTask = new RowsFilterTask(peakList, parameters);
      tasks.add(newTask);

    }
    logger.info("finished...");
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    PeakList peakLists[] = parameters.getParameter(
        IsotopeGrouperParameters.peakLists).getValue();

    for (final PeakList peakList : peakLists) {
      Task newTask = new IsotopeGrouperTask(peakList, parameters);
      tasks.add(newTask);
    }

    return ExitCode.OK;
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Related Classes of net.sf.mzmine.taskcontrol.Task

  • net.sf.mzmine.modules.batchmode.BatchModeModule
  • net.sf.mzmine.modules.masslistmethods.chromatogrambuilder.ChromatogramBuilderModule
  • net.sf.mzmine.modules.masslistmethods.shoulderpeaksfilter.ShoulderPeaksFilterModule
  • net.sf.mzmine.modules.peaklistmethods.alignment.join.JoinAlignerModule
  • net.sf.mzmine.modules.peaklistmethods.alignment.path.PathAlignerModule
  • net.sf.mzmine.modules.peaklistmethods.alignment.ransac.RansacAlignerModule
  • net.sf.mzmine.modules.peaklistmethods.filtering.duplicatefilter.DuplicateFilterModule
  • net.sf.mzmine.modules.peaklistmethods.filtering.rowsfilter.RowsFilterModule
  • net.sf.mzmine.modules.peaklistmethods.gapfilling.peakfinder.PeakFinderModule
  • net.sf.mzmine.modules.peaklistmethods.gapfilling.samerange.SameRangeGapFillerModule
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