Package net.sf.mzmine.project

Examples of net.sf.mzmine.project.MZmineProject.addPeakList()

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      return;
    }

    // Add new peaklist to the project or MZviewer.desktop
    MZmineProject currentProject = MZmineCore.getCurrentProject();
    currentProject.addPeakList(buildingPeakList);

    logger.info("Finished parsing " + fileName);
    setStatus(TaskStatus.FINISHED);

  }
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    }

    // Add new peaklist to the project
    MZmineProject currentProject = MZmineCore.getCurrentProject();
    currentProject.addPeakList(normalizedPeakList);

    // Load previous applied methods
    for (PeakListAppliedMethod proc : originalPeakList.getAppliedMethods()) {
      normalizedPeakList.addDescriptionOfAppliedTask(proc);
    }
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    aligner = (Aligner) new ScoreAligner(this.peakLists, parameters);
    alignedPeakList = aligner.align();
    // Add new aligned peak list to the project
    MZmineProject currentProject = MZmineCore.getCurrentProject();
    currentProject.addPeakList(alignedPeakList);

    // Add task description to peakList
    alignedPeakList
        .addDescriptionOfAppliedTask(new SimplePeakListAppliedMethod(
            "Path aligner", parameters));
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        if (!isCanceled()) {

          // Add new peaklist to the project
          final MZmineProject currentProject = MZmineCore
              .getCurrentProject();
          currentProject.addPeakList(filteredPeakList);

          // Remove the original peaklist if requested
          if (parameters.getParameter(AUTO_REMOVE).getValue()) {

            currentProject.removePeakList(origPeakList);
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    } // Next peak list

    // Add new aligned peak list to the project
    MZmineProject currentProject = MZmineCore.getCurrentProject();
    currentProject.addPeakList(alignedPeakList);

    // Add task description to peakList
    alignedPeakList
        .addDescriptionOfAppliedTask(new SimplePeakListAppliedMethod(
            "Ransac aligner", parameters));
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    }

    // Add new peakList to the project
    MZmineProject currentProject = MZmineCore.getCurrentProject();
    currentProject.addPeakList(extendedPeakList);

    // Load previous applied methods
    for (PeakListAppliedMethod proc : peakList.getAppliedMethods()) {
      extendedPeakList.addDescriptionOfAppliedTask(proc);
    }
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    // Add new peaklists to the project
    MZmineProject currentProject = MZmineCore.getCurrentProject();

    for (int i = 0; i < originalPeakLists.length; i++) {

      currentProject.addPeakList(normalizedPeakLists[i]);

      // Load previous applied methods
      for (PeakListAppliedMethod proc : originalPeakLists[i]
          .getAppliedMethods()) {
        normalizedPeakLists[i].addDescriptionOfAppliedTask(proc);
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      normalizedPeakList.addRow(normalizedRow);
    }

    // Add new peaklist to the project
    MZmineProject currentProject = MZmineCore.getCurrentProject();
    currentProject.addPeakList(normalizedPeakList);

    // Load previous applied methods
    for (PeakListAppliedMethod proc : originalPeakList.getAppliedMethods()) {
      normalizedPeakList.addDescriptionOfAppliedTask(proc);
    }
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    } // Next peak list

    // Add new aligned peak list to the project
    MZmineProject currentProject = MZmineCore.getCurrentProject();
    currentProject.addPeakList(alignedPeakList);

    // Add task description to peakList
    alignedPeakList
        .addDescriptionOfAppliedTask(new SimplePeakListAppliedMethod(
            "Join aligner", parameters));
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