apollo.analysis
Class BlastHandler

java.lang.Object
  apollo.analysis.GenericProgramHandler
      apollo.analysis.BlastHandler

All Implemented Interfaces:

ProgramHandlerI

public class BlastHandler
extends GenericProgramHandler

Constructor Summary

BlastHandler()

Method Summary

java.lang.String	createUnixShellCommand(SeqAnalysisLocal seqAnalysis) different analysis programs require different ways of running them this method is only called by SeqAnalysisLocal
CurationSet	parseAnalysisResults(SeqAnalysisI seqAnalysis) different programs must be parsed differently implementations may also choose to also filter the results in some configurable way.

Methods inherited from class java.lang.Object

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

Constructor Detail

BlastHandler

public BlastHandler()

Method Detail

createUnixShellCommand

public java.lang.String createUnixShellCommand(SeqAnalysisLocal seqAnalysis)

different analysis programs require different ways of running them this method is only called by SeqAnalysisLocal

Specified by:

createUnixShellCommand in interface ProgramHandlerI

Overrides:

createUnixShellCommand in class GenericProgramHandler

parseAnalysisResults

public CurationSet parseAnalysisResults(SeqAnalysisI seqAnalysis)

different programs must be parsed differently implementations may also choose to also filter the results in some configurable way. it is up to the individual implementations to respect these

Specified by:

parseAnalysisResults in interface ProgramHandlerI

Overrides:

parseAnalysisResults in class GenericProgramHandler