charite.christo.strap.extensions
Class Superimpose_GoedePROXY

java.lang.Object
  charite.christo.AbstractProxy
      charite.christo.strap.AbstractAlignerProxy
          charite.christo.strap.extensions.Superimpose_GoedePROXY

All Implemented Interfaces:

HasPropertyMap, NeedsProteins, Superimpose3D

public final class Superimpose_GoedePROXY
extends AbstractAlignerProxy
implements Superimpose3D

HELP The C-alpha positions of two proteins are superimposed. The connectivity and the order of atoms and the type of amino acids are not used for the superposition.
Author: Andrean Goede
Ported from Pascal: Matthias Dunckel.

Nested Class Summary

Nested classes/interfaces inherited from interface charite.christo.protein.Superimpose3D

Superimpose3D.Result

Field Summary

Fields inherited from class charite.christo.AbstractProxy

ACTIVATION, ADAPTERS_JAR, BIOJAVA_3D, COMMONS_COLLECTIONS, GLUGEN, JCOMMON, JOGL, LOG4J, PFX_INSTALLED, TRY_BOOT_CLASSLOADER

Fields inherited from interface charite.christo.protein.Superimpose3D

COLUMN_SEQUENCE, NO_BYTE, PARSE_ALIGNMENT, PARSE_MATRIX, PARSE_MSA_START_S, PARSE_SCORE, PRINT_HUMAN_READABLE

Constructor Summary

Superimpose_GoedePROXY()

Method Summary

java.lang.String

getRequiredJars()

Methods inherited from class charite.christo.strap.AbstractAlignerProxy

compute, getAlignedSequences, getOptions, getProteins, getResult, getSequences, setOptions, setProteins, setSequences

Methods inherited from class charite.christo.AbstractProxy

dispose, disposeProxy, getControlPanel, getPrgParas, getPropertyMap, getProxy, getScore, getSharedControlPanel, getSharedInstance, interpret, jarFile, jarsContainingNativeLibraries, proxyObject, proxyObjectRun, remoteURLs, setOptions, setSharedInstance, usrShareJava

Methods inherited from class java.lang.Object

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

Methods inherited from interface charite.christo.protein.Superimpose3D

compute, getOptions, getProteins, getResult, setOptions

Methods inherited from interface charite.christo.protein.NeedsProteins

setProteins

Constructor Detail

Superimpose_GoedePROXY

public Superimpose_GoedePROXY()

Method Detail

getRequiredJars

public java.lang.String getRequiredJars()

Specified by:

getRequiredJars in class AbstractProxy