Constructor Detail

• Workflow

  public Workflow()

Method Detail

• getJobs

  public List<AbstractJob> getJobs()

  get all jobs in current workflow

  Returns:

• addJobs

  public void addJobs(AbstractJob job)

  add job to the workflow

  Parameters:

  job -

• getWorkflowBundleDir

  public String getWorkflowBundleDir()

  Returns:

  the workflowbundle diretory

• setWorkflowBundleDir

  public void setWorkflowBundleDir(String workflowBundleDir)

  set the workflowBundle directory

  Parameters:

  workflowBundleDir -

• createJavaSeqwareModuleJob

  public Job createJavaSeqwareModuleJob(String algo,
                               String cp,
                               String module)

• createJavaJob

  public Job createJavaJob(String algo,
                  String cp,
                  String mainclass)

• createBashJob

  public Job createBashJob(String algo)

• createJobBatch

  public JobBatch createJobBatch(String algo)

• createPerlJob

  public Job createPerlJob(String algo,
                  String script)

• addTest

  public void addTest(String value)

  add a test command for the workflow

  Parameters:

  value -

• getTests

  public Collection<String> getTests()

  Returns:

  all test commands