}
/**
- * Max Gaps Threshold (percent) for performing a conservation calculation
+ * Max Gaps Threshold (percent) for performing a conservation calculation
*/
private int consPercGaps = 25;
/**
* set Max Gaps Threshold (percent) for performing a conservation calculation
- * @param consPercGaps
+ *
+ * @param consPercGaps
*/
public void setConsPercGaps(int consPercGaps)
{
}
if (cs != null)
{
- cs.alignmentChanged(context!=null ? context : this, null);
+ cs.alignmentChanged(context != null ? context : this, null);
}
} catch (java.lang.OutOfMemoryError err)
{
consensus.annotations = new Annotation[aWidth]; // should be alignment width
AAFrequency.completeConsensus(consensus, cnsns, startRes, endRes + 1,
- ignoreGapsInConsensus, showSequenceLogo, nseq); // TODO: setting container
- // for
- // ignoreGapsInConsensusCalculation);
+ ignoreGapsInConsensus, showSequenceLogo, nseq); // TODO: setting
+ // container
+ // for
+ // ignoreGapsInConsensusCalculation);
}
/**
{
sequences.clear();
}
+
private AnnotatedCollectionI context;
+
/**
* set the alignment or group context for this group
+ *
* @param context
*/
public void setContext(AnnotatedCollectionI context)
{
- this.context = context;
+ this.context = context;
}
- /* (non-Javadoc)
+
+ /*
+ * (non-Javadoc)
+ *
* @see jalview.datamodel.AnnotatedCollectionI#getContext()
*/
@Override