Package ffx.potential.commands

Class Fasta

java.lang.Object

ffx.utilities.FFXCommand

ffx.potential.cli.PotentialCommand

ffx.potential.commands.Fasta

public class Fasta
extends PotentialCommand

Fasta outputs a sub-sequence from a FASTA file.

Usage: ffxc Fasta [options] <filename.fasta>

Field Summary

Fields inherited from class ffx.potential.cli.PotentialCommand

activeAssembly, baseDir, potentialFunctions

Fields inherited from class ffx.utilities.FFXCommand

args, binding, color, help, logger, parseResult, version

Constructor Summary

Constructors

Constructor	Description
Fasta()
Fasta(FFXBinding binding)
Fasta(String[] args)

Method Summary

Modifier and Type	Method	Description
Fasta	run()	Execute this Command.

Methods inherited from class ffx.potential.cli.PotentialCommand

createOutputFile, destroyPotentials, getActiveAssemblies, getActiveAssembly, getActiveAssembly, getBaseDirString, getPotentials, getPotentialsFromAssemblies, init, parseFilePath, saveByExtension, saveByExtension, saveByOriginalExtension, saveByOriginalExtension, setActiveAssembly

Methods inherited from class ffx.utilities.FFXCommand

getCommand, helpString, listCommands, setBinding

Methods inherited from class java.lang.Object

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

Constructor Details

Fasta

public Fasta()

Fasta

public Fasta(FFXBinding binding)

Fasta

public Fasta(String[] args)

Method Details

run

public Fasta run()

Description copied from class: FFXCommand

Execute this Command.

Overrides:

run in class FFXCommand

Returns:

The current FFXCommand.