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#32 change on tag orientation after break of contig

v1.5.3
closed-fixed
Gap4 (50)
5
2005-04-28
2005-04-15
mbs_
No

When breaking a contig with consensus tags (TC) the
orintation of the tags to the 3' end all end up as +
direction. The tags to the 5' end remain as they were.

Markus

Discussion

  • James Bonfield
    James Bonfield
    2005-04-27

    • assigned_to: nobody --> jkbonfield
     
  • James Bonfield
    James Bonfield
    2005-04-28

    • status: open --> closed-fixed
     
  • James Bonfield
    James Bonfield
    2005-04-28

    Logged In: YES
    user_id=154581

    I've managed to reproduce and fix this problem in the source.

    A patch to src/gap4/dis_readings.c is:

    *** dis_readings.c 27 Apr 2005 16:15:11 -0000 1.10
    --- dis_readings.c 28 Apr 2005 11:30:42 -0000
    ***************
    *** 219,224 ****
    --- 219,225 ----
    last.position = a.position;
    last.length = a.length;
    last.type = a.type;
    + last.strand = a.strand;
    last.next = 0;
    if (a.annotation) {
    char *comment = get_comment(io,
    a.annotation);

    (ie 1 single line added.)

    This has been committed to the CVS tree and so will make it
    in the next gap4 release, although unfortunately that
    doesn't have a scheduled date yet.

    James