Package ffx.potential.commands

Class ChainBreaks

java.lang.Object

ffx.utilities.FFXCommand

ffx.potential.cli.PotentialCommand

ffx.potential.commands.ChainBreaks

public class ChainBreaks
extends PotentialCommand

Fix chain breaks in a PDB file. Usage: ffxc ChainBreaks <filename>

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
ChainBreaks()
ChainBreaks(FFXBinding binding)
ChainBreaks(String[] args)

Method Summary

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

Methods inherited from class ffx.potential.cli.PotentialCommand

destroyPotentials, getActiveAssemblies, getActiveAssembly, getBaseDirString, getPotentials, init, 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

ChainBreaks

public ChainBreaks()

ChainBreaks

public ChainBreaks(FFXBinding binding)

ChainBreaks

public ChainBreaks(String[] args)

Method Details

run

public ChainBreaks run()

Description copied from class: FFXCommand

Execute this Command.

Overrides:

run in class FFXCommand

Returns:

The current FFXCommand.