Re: [Jtreeview-users] (no subject)

[Alok S. <al...@ca...>]

Dear Lisa,

Please try the following (assuming you're using mac os x):

1) Open the mac os x version.
2) Open your CDT file, but in the open menu select "Linked" from the  
style pulldown

The multiple applications have been supplanted by the "style" menu.  
Sorry about the confusion. For a longer explanantion, see

http://jtreeview.sourceforge.net/docs/FAQ.html#q004

but it's not really relevant. Currently Karyoscope is a little  
annoying to get working correctly. After loading a file and selecting  
"Make Karyoscope"
from the Analysis pulldown, you need to click on the "Coordinates..."  
button, then "Load from file...", and then navigate to an appropriate  
coordinates file, such as
the two that come with JTV for yeast and human.

The problem is, you have to do it every time! This is a hassle, and  
I'm working on being able to specify it once, but in the meantime I
recommend that you put the coordinates file in whatever directory the  
"load from file..." dialog opens to.

I should note that this wasn't how it was supposed to work, but that  
in the past I reorganized the internals of JTV several times, and  
some menuitems got lost in the shuffle.

	-Alok

On Mar 3, 2006, at 6:33 AM, Lisa Scheifele wrote:

>
> Hello,
>
>> I am having some trouble using JavaTree View to view array-CGH  
>> data because I can't seem to get to the Karyoscpe view. I  
>> downloaded Java Tree View in both OSX and .bin.tar formats. With  
>> OSX I only got the JTView launcher and the Coordinates and Images  
>> folders. With the .bin, I got the LinkedView application as well,  
>> but I don;t have a Karyoscope option under the Analysis menu. Do  
>> you have any idea what I'm doing wrong???
>
> Thanks for your help,
>
>
>
> Lisa Z. Scheifele, Ph.D.
> 320 Broadway Research Building
> Johns Hopkins University School of Medicine
> 733 North Broadway
> Baltimore, MD 21205
> lsc...@bs...
>
>
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