org.forester.msa

Class MsaInferrer

java.lang.Object

org.forester.msa.MsaInferrer

Direct Known Subclasses:

ClustalOmega, Mafft

public abstract class MsaInferrer
extends Object

Constructor Summary

Constructors

Constructor and Description
MsaInferrer()

Method Summary

Modifier and Type	Method and Description
Object	clone()
abstract String	getErrorDescription()
abstract int	getExitCode()
abstract Msa	infer(File path_to_input_seqs, List<String> opts)
abstract Msa	infer(List<MolecularSequence> seqs, List<String> opts)
static boolean	isInstalled(String path_to_prg)

Methods inherited from class java.lang.Object

equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

MsaInferrer

public MsaInferrer()

Method Detail

getErrorDescription

public abstract String getErrorDescription()

getExitCode

public abstract int getExitCode()

isInstalled

public static boolean isInstalled(String path_to_prg)

clone

public Object clone()

Overrides:

clone in class Object

infer

public abstract Msa infer(File path_to_input_seqs,
                          List<String> opts)
                   throws IOException,
                          InterruptedException

Throws:

IOException

InterruptedException

infer

public abstract Msa infer(List<MolecularSequence> seqs,
                          List<String> opts)
                   throws IOException,
                          InterruptedException

Throws:

IOException

InterruptedException