#27 Gap4 10 (1.5.3) hangs in join align operation

closed-fixed
None
5
2005-01-24
2005-01-21
Bastien Chevreux
No

Hi there,

I have a small test project where gap4 10 (1.5.3
release) reproducibly hangs when doing this:

Menu: View->Find internal joins-> [OK] (with standard
parameters)
Contig selector -> Invoke join editor (on two specific
reads)
Join editor -> [Align]

This did not happen in the gap4 V9 release.

The project will be sent by mail (too large for here).

Regards,
Bastien

Discussion

  • James Bonfield
    James Bonfield
    2005-01-24

    • assigned_to: nobody --> jkbonfield
    • status: open --> closed-fixed
     
  • James Bonfield
    James Bonfield
    2005-01-24

    Logged In: YES
    user_id=154581

    After some investigation I've discovered that this has
    indeed been fixed by solving another problem.

    http://cvs.sourceforge.net/viewcvs.py/staden/staden/src/gap4/join.c?r1=1.4&r2=1.5&sortby=date

    I verified the data set you sent me (many thanks for that)
    with and without that change.

    Seems like I should keep up the bug-fixing splurge and
    prepare a new release.

    James