Constructor and Description |
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CallableStructureAlignment()
Default constructor.
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CallableStructureAlignment(Atom[] ca1,
Atom[] ca2,
java.lang.String algorithmName)
Constructor for all-to-all alignment calculation.
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Modifier and Type | Method and Description |
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AFPChain |
call() |
Atom[] |
getCa1() |
AtomCache |
getCache() |
SynchronizedOutFile |
getOutFile() |
PdbPair |
getPair() |
void |
setAlgorithmName(java.lang.String algorithmName) |
void |
setCa1(Atom[] ca1) |
void |
setCache(AtomCache cache) |
void |
setOutFile(SynchronizedOutFile outFile) |
void |
setOutputDir(java.io.File outFileF) |
void |
setPair(PdbPair pair) |
void |
setParameters(ConfigStrucAligParams parameters) |
public CallableStructureAlignment()
public CallableStructureAlignment(Atom[] ca1, Atom[] ca2, java.lang.String algorithmName)
ca1
- Atoms to align of the first structureca2
- Atoms to align of the second structurealgorithmName
- the name of the alignment algorithm to usepublic AFPChain call() throws java.lang.Exception
call
in interface java.util.concurrent.Callable<AFPChain>
java.lang.Exception
public PdbPair getPair()
public void setPair(PdbPair pair)
public AtomCache getCache()
public void setCache(AtomCache cache)
public SynchronizedOutFile getOutFile()
public void setOutFile(SynchronizedOutFile outFile)
public Atom[] getCa1()
public void setCa1(Atom[] ca1)
public void setOutputDir(java.io.File outFileF)
public void setAlgorithmName(java.lang.String algorithmName)
public void setParameters(ConfigStrucAligParams parameters)