/**
* Gets the GATK samples database
*
* @link GenomeAnalysisEngine.getSampleDB
* @return the GATK samples database or null if no genome analysis toolkit.
*/
public SampleDB getSampleDB() {
if (toolkit == null) return null;
else return toolkit.getSampleDB();
}
/**
* Gets the master sequence dictionary for this walker
*
* @link GenomeAnalysisEngine.getMasterSequenceDictionary
* @return the master sequence dictionary or null if no genome analysis toolkit.
*/
protected SAMSequenceDictionary getMasterSequenceDictionary() {
if (toolkit == null) return null;
else return toolkit.getMasterSequenceDictionary();
}
/**
* Gets the GATK argument collection
*
* @link GenomeAnalysisEngine.getArguments
* @return the GATK argument collection or null if no genome analysis toolkit.
*/
public GATKArgumentCollection getArguments() {
if (toolkit == null) return null;
else return toolkit.getArguments();
}