[Jalview-discuss] Missing aligned sequences in image!

[James Procter]

subhendu at UDel.Edu wrote:
> Hi Jim,
> Sending the jalview project (subhendu.jar)and a couple of .eps file.Please notice the change when I change the font size.
Received correctly. I checked with the current 2.4 version of jalview
and the project file is fine. It also seems to export correctly when I
try png and eps for myself. This means it isn't a bug in Jalview - which
is good news for you!

When I looked at your EPS files in Adobe Illustrator, I noticed that the
first block is usually outside the page bounding box. I'm not sure what
you are using to view the EPS files, but I suspect that it is not
computing the artwork bounding box correctly - and so clipping off the
first block of alignment (and in the font size 8 case, cutting off the
top 8 sequences of the first block.

If you can't get access to a program like Illustrator, another trick is
to use something like ghostscript + gsviewer - which are available for
free - they will let you scale and view the eps file. you can also used
distiller to translate the eps into a pdf file - but you have to make
sure the print settings are set so distiller scales the artwork to the page.

let me know if you have any more problems - I'll ask my colleagues if
they know of any free/cheap postscript lineart editors (Xara is one, and
corel draw would also do fine).

Jim

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J. B. Procter  (ENFIN/VAMSAS)  Barton Bioinformatics Research Group
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