#18 cannot select lowest read for editing

Gap4 (50)

MacOSX 10.3.5, X11 XFree 4.3.0, using the staden
package which is included in ebiotools, run as user,
gap v4.9 test 3

Procedure: using pregap 4 configured for gap4 shotgun
assembly with 4 *.abi sequences and one *.txt
(reference sequence). Within the gap4 edit contig
window (the one that shows the embedded trace files
now, by the way THANKS for this one, and also for the
possibility to define a ref sequence) the sequence on
the bottom is not editable. It is true even if upon
scrolling an other sequence comes to the bottom (the
former bottom sequence becomes editable in the region
where another sequence ist below).


  • Nobody/Anonymous

    Logged In: NO

    sorry, for requests: benjamin.quest(at)ibs.fr

  • James Bonfield

    James Bonfield - 2004-11-17
    • assigned_to: nobody --> jkbonfield
  • James Bonfield

    James Bonfield - 2004-11-17

    Logged In: YES

    Please forgive me if you're a well-versed Staden Package
    user, but the way I read the above seems to imply that you
    are trying to edit the "Consensus" sequence. The bottom
    sequence is (sort of) the average of the above ones.

    It *is* possible to edit the consensus if you really wish to
    do so, but doing this will edit all of the above readings to
    agree with it (as the consensus is not stored - it is
    computed on the fly). To do this you'd need to use the Edit
    Modes menu in the contig editor to select something like
    "allow edits in cons".

    Please let me know if the problem is this simple, or whether
    it's a real issue with not being able to edit the
    bottom-most real sequence.


    PS. I tested the Mac version on the DEMO.0 database supplied
    with the package and it all seems to work fine for me.


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