[Gmod-apollo-cmts] CVS: apollo/src/java/apollo/gui SequenceSelector.java,1.1.2.11,1.1.2.12

[Nomi H. <no...@us...>]

Update of /cvsroot/gmod/apollo/src/java/apollo/gui
In directory usw-pr-cvs1:/tmp/cvs-serv27909

Modified Files:
      Tag: sanger_branch
	SequenceSelector.java 
Log Message:

fixed problem where sequence matches started at second char rather than first


Index: SequenceSelector.java
===================================================================
RCS file: /cvsroot/gmod/apollo/src/java/apollo/gui/Attic/SequenceSelector.java,v
retrieving revision 1.1.2.11
retrieving revision 1.1.2.12
diff -C2 -d -r1.1.2.11 -r1.1.2.12
*** SequenceSelector.java	29 Jan 2002 00:31:06 -0000	1.1.2.11
--- SequenceSelector.java	22 Mar 2002 21:54:50 -0000	1.1.2.12
***************
*** 73,80 ****
          matches.addElement(new Long(matchPos));
          if (!reverseComplement) {
!           context.addElement(seq.getResidues((int)matchPos+1,
                                               (int)matchPos+(int)contextLen - 1 ));
          } else {
!           long matchEnd = matchPos-contextLen + 1; 
            if (matchEnd < end ) { matchEnd = end;}
            context.addElement(seq.getResidues((int)matchPos, (int)matchEnd));
--- 73,80 ----
          matches.addElement(new Long(matchPos));
          if (!reverseComplement) {
!           context.addElement(seq.getResidues((int)matchPos,
                                               (int)matchPos+(int)contextLen - 1 ));
          } else {
!           long matchEnd = matchPos-contextLen + 1;
            if (matchEnd < end ) { matchEnd = end;}
            context.addElement(seq.getResidues((int)matchPos, (int)matchEnd));