[Gmod-apollo-cmts] CVS: apollo/src/java/apollo/analysis/filter AnalysisFilter.java,1.20,1.21

[Suzanna L. <su...@us...>]

Update of /cvsroot/gmod/apollo/src/java/apollo/analysis/filter
In directory sc8-pr-cvs1.sourceforge.net:/tmp/cvs-serv11585/apollo/analysis/filter

Modified Files:
	AnalysisFilter.java 
Log Message:

fixed the divide by zero bug that occurs if the hit sequence
is an amino acid 



Index: AnalysisFilter.java
===================================================================
RCS file: /cvsroot/gmod/apollo/src/java/apollo/analysis/filter/AnalysisFilter.java,v
retrieving revision 1.20
retrieving revision 1.21
diff -C2 -d -r1.20 -r1.21
*** AnalysisFilter.java	25 May 2004 15:25:18 -0000	1.20
--- AnalysisFilter.java	25 May 2004 19:51:26 -0000	1.21
***************
*** 707,713 ****
  	int overlap = -spacing;
  	int genomic_overlap = getOverlap (prev_span, next_span);
  	if (genomic_overlap > 0) {
- 	  if (prev_hit_span.getRefSequence().getResidueType() == SequenceI.AA)
- 	    genomic_overlap = genomic_overlap / 3;
  	  double ratio = overlap / genomic_overlap;
  	  is_sequential = (ratio > 0.8 && ratio <= 6.0);
--- 707,714 ----
  	int overlap = -spacing;
  	int genomic_overlap = getOverlap (prev_span, next_span);
+         if (genomic_overlap > 0 &&
+             prev_hit_span.getRefSequence().getResidueType() == SequenceI.AA)
+           genomic_overlap = genomic_overlap / 3;
  	if (genomic_overlap > 0) {
  	  double ratio = overlap / genomic_overlap;
  	  is_sequential = (ratio > 0.8 && ratio <= 6.0);