Hello, this is my problem: I used a jalview batch to incorporate jalview into an alignment program. I put some parameters as -colour, and -png to safe the resulting file as image. All is ok except in the png files there is a superimposition of some letters and numbers at the beginning of the images, as if the images were not large enough to display correctly. I can't find a way to set up some parameters to try to have images with different dimensions. To save in svg doesn't change the result.
If I use jalview desktop and I save the box as png image all is ok, not superimposition, but i can't use it because I need to include jalview into my code. Any suggestion to set some parameters ? I attached an image as example. As you can see numbers in the left side are not display correctly. Thanks. Alessandra
Align7
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