help required on JalView imgMap


I have succesfully installed Jalview Install Anywhere and am using Jalview with command line.

"./Jalview -open inputseq.aln -nodisplay -png image.png -imgMap image.html";

i see that both image.png and image.html are being created but i don’t see the image map working when i move the mouse. I see the function moveToMouseLoc(e) defined in the image.html though.

I tried using IE 6 and Firefox 3.0.19, do i need to make any changes for the java script to work with these browsers? Can some one please help


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Hello Srisha.

Would you be able to email me an archive containing the alignment and the generated image and html ? I can check to see what’s going on.


J. B. Procter  (JALVIEW/ENFIN)  Barton Bioinformatics Research Group
Phone/Fax:+44(0)1382 388734/345764  [](
The University of Dundee is a Scottish Registered Charity, No. SC015096.