> I am having troubles bringing up text features in the Sequence graphics
> display using xace on our Unix machine, and I note the same problem with
> both WebAce and AceBrowser.
>> I thought that tags under the 'Visible' tag of the ?Sequence model were
> automatically displayed in the Sequence graphics display. This is the
> case for MacAce, but not so for xace, WebAce, or AceBrowser.
This was the case for versions pre 4.7 (don't know about 4.6).
>> It appears that some parameter needs to be set.
>> I perused through the display.wrm and options.wrm files but could not
> find what parameter needs to be set.
I found the following worked for me (thanks to R. Durbin for this one).
Update ?Method in models.wrm:
?Method Remark ?Text
Display Colour #Colour
Frame_sensitive
Strand_sensitive Show_up_strand #Colour
Score Score_by_offset
Score_by_width
Score_bounds UNIQUE Float UNIQUE Float
Percent
Overlap_mode UNIQUE Overlap
Bumpable
Cluster
Width UNIQUE Float
Symbol UNIQUE Text
Right_priority UNIQUE Float
Max_mag UNIQUE Float
Min_mag UNIQUE Float
Show_text
Blastn
Show_text is the important bit here (see ACEDB 4.7 models.wrm).
Also add the following to ?Sequence
Method UNIQUE ?Method
Now define a Method object which makes the Visible stuff display, e.g.
Method : Default_Sequence
Remark "A default display method for sequences."
Display Show_Text
Now add this method to all your sequences object that you want to have
text annotation.
I hope this helps. Hamish.
--
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Hamish P. McWilliam
Brassica and Oilseeds Research
John Innes Center
Norwich Research Park
Colney Lane
Norwich
NR4 7UH
Tel: 01603-452571 x2553
WWW: http://jiio10.jic.bbsrc.ac.uk/
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God invented Brownian motion to stir his coffee.
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