org.biojava.bio.structure.align.fatcat
Class FatCatRigid
java.lang.Object
org.biojava.bio.structure.align.fatcat.FatCat
org.biojava.bio.structure.align.fatcat.FatCatRigid
- All Implemented Interfaces:
- StructureAlignment
public class FatCatRigid
- extends FatCat
- implements StructureAlignment
algorithmName
public static String algorithmName
FatCatRigid
public FatCatRigid()
align
public AFPChain align(Atom[] ca1,
Atom[] ca2)
throws StructureException
- Description copied from interface:
StructureAlignment
- Run an alignment while specifying the atoms to be aligned. Will used default parameters for the algorithm.
- Specified by:
align
in interface StructureAlignment
- Returns:
- the afpChain object that contains the alignment.
- Throws:
StructureException
align
public AFPChain align(Atom[] ca1,
Atom[] ca2,
Object param)
throws StructureException
- Description copied from interface:
StructureAlignment
- run an alignment and also send a bean containing the parameters.
- Specified by:
align
in interface StructureAlignment
- Returns:
- the afpChain object that contains the alignment.
- Throws:
StructureException
getAlgorithmName
public String getAlgorithmName()
- Description copied from interface:
StructureAlignment
- Get the name of the Algorithm
- Specified by:
getAlgorithmName
in interface StructureAlignment
- Returns:
- the name of the algorithm
getParameters
public ConfigStrucAligParams getParameters()
- Description copied from interface:
StructureAlignment
- Return the paramers for this algorithm.
- Specified by:
getParameters
in interface StructureAlignment
- Returns:
- The returned object will be a Java bean.
getVersion
public String getVersion()
- Description copied from interface:
StructureAlignment
- Get the Version information for this Algorithm.
- Specified by:
getVersion
in interface StructureAlignment
- Returns:
- the version of the algorithm
setParameters
public void setParameters(ConfigStrucAligParams parameters)
- Description copied from interface:
StructureAlignment
- Set the default parameters for this algorithm to use
- Specified by:
setParameters
in interface StructureAlignment