Thank you very much. That worked like a charm. Simply reverting back to
1.7.1 like your example made it work. I was using BioJava 3.0.8. Now when I
see the api, all methods are changed. translate() is replaced with
getProteinSequence() etc.
My protein output is a little different from http://translate-protein.com/
(Frame 1) and http://web.expasy.org/translate/ (Frame 1).
Outputs comparison: http://www.diffnow.com/?report=sd9t4
Should I use the new version or should use another method
http://biojava.org/wiki/BioJava:Cookbook:Translation:SixFrames
On Fri, Jul 18, 2014 at 1:24 AM, Alan R Williams <
[email protected]> wrote:
> I think the problem is that the BioJava Cookbook is out of date. I tried
> with BioJava version 1.7.1 (which is very old) and a beanshell works - see
> attached.
>
> Alan
>
>
>
>
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>
--
Muhammad Usama
2011-NUST-MS-CS-009
------------------------------------------------------------------------------
Want fast and easy access to all the code in your enterprise? Index and
search up to 200,000 lines of code with a free copy of Black Duck
Code Sight - the same software that powers the world's largest code
search on Ohloh, the Black Duck Open Hub! Try it now.
http://p.sf.net/sfu/bds
_______________________________________________
taverna-users mailing list
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