In some cases, you might need to use more than one processing method in the sequence. For example, the sequest.pmd method runs the Daemon utility with a parameter file containing a simple Sequest HT workflow, and the export.pmd method runs the utility with an export workflow.

Procedure

  1. In the Sequence Setup view, select File > New.
  2. The New Sequence Template dialog box opens.
  3. Enter the appropriate values in each of the boxes.
  4. In the Bracket Type area, select the None option.
  5. You can now change the processing methods individually for each sample.
  6. New Sequence Template with the selection of None for the bracket type
    New Sequence Template with the selection of None for the bracket type
  7. Sequence with two different processing methods
    Sequence with two different processing methods
  8. Select OK.
  9. In this example, the Xcalibur data system starts two different workflows (performing a Sequest HT search and exporting a raw data file) for the recorded raw data files in the Proteome Discoverer application.
  10. Two workflows in the job queue started by two different processing methods