Package ffx.potential.commands

Class ImportCIF

java.lang.Object

ffx.utilities.FFXCommand

ffx.potential.cli.PotentialCommand

ffx.potential.commands.ImportCIF

public class ImportCIF
extends PotentialCommand

Convert a CIF file to PDB/XYZ format. Usage: ffxc ImportCIF <filename.cif> <filename>

Field Summary

Fields

Modifier and Type	Field	Description
String[]	createdFiles	Array of strings containing files created.

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

Method Summary

Modifier and Type	Method	Description
List<Potential>	getPotentials()	Returns a List of all Potential objects associated with this script.
ImportCIF	run()	Execute this Command.

Methods inherited from class ffx.potential.cli.PotentialCommand

destroyPotentials, getActiveAssemblies, getActiveAssembly, getBaseDirString, 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

Field Details

createdFiles

public String[] createdFiles

Array of strings containing files created.

Constructor Details

ImportCIF

public ImportCIF()

ImportCIF

public ImportCIF(FFXBinding binding)

ImportCIF

public ImportCIF(String[] args)

Method Details

run

public ImportCIF run()

Description copied from class: FFXCommand

Execute this Command.

Overrides:

run in class FFXCommand

Returns:

The current FFXCommand.

getPotentials

public List<Potential> getPotentials()

Description copied from class: PotentialCommand

Returns a List of all Potential objects associated with this script. Should be written to tolerate nulls, as many tests run help() and exit without instantiating their Potentials.

Overrides:

getPotentials in class PotentialCommand

Returns:

All Potentials. Sometimes empty, never null.