Method Detail

• createInstance

  public static MsaInferrer createInstance​(java.lang.String path_to_prg)
                                    throws java.io.IOException

  Throws:

  java.io.IOException

• getDefaultParameters

  public static java.lang.String getDefaultParameters()

• getErrorDescription

  public java.lang.String getErrorDescription()

  Specified by:

  getErrorDescription in class MsaInferrer

• getExitCode

  public int getExitCode()

  Specified by:

  getExitCode in class MsaInferrer

• infer

  public Msa infer​(java.util.List<MolecularSequence> seqs,
                   java.util.List<java.lang.String> opts)
            throws java.io.IOException,
                   java.lang.InterruptedException

  Specified by:

  infer in class MsaInferrer

  Throws:

  java.io.IOException

  java.lang.InterruptedException

• infer

  public Msa infer​(java.io.File path_to_input_seqs,
                   java.util.List<java.lang.String> opts)
            throws java.io.IOException,
                   java.lang.InterruptedException

  Specified by:

  infer in class MsaInferrer

  Throws:

  java.io.IOException

  java.lang.InterruptedException