Class Hierarchy
- java.lang.Object
- java.util.AbstractMap<K,
V> (implements java.util.Map<K, V>) - org.biojava.nbio.structure.align.util.AlignmentTools.IdentityMap<K>
 
 - org.biojava.nbio.structure.align.util.AFPAlignmentDisplay
 - org.biojava.nbio.structure.align.util.AFPChainScorer
 - org.biojava.nbio.structure.align.util.AlignmentTools
 - org.biojava.nbio.structure.align.util.AtomCache
 - org.biojava.nbio.structure.align.util.CacheFactory
 - org.biojava.nbio.structure.align.util.CliTools
 - org.biojava.nbio.structure.align.util.CollectionTools
 - org.biojava.nbio.structure.align.util.HTTPConnectionTools
 - org.biojava.nbio.structure.align.util.ResourceManager
 - org.biojava.nbio.structure.align.util.RotationAxis
 - org.biojava.nbio.structure.align.util.SynchronizedOutFile
 - java.lang.Throwable (implements java.io.Serializable)
- java.lang.Exception
- org.biojava.nbio.structure.align.util.ConfigurationException
 
 
 - java.lang.Exception
 - org.biojava.nbio.structure.align.util.UserConfiguration
 
 - java.util.AbstractMap<K,