Hello,
You can fetch the results using could using Taverna's 'get web page from
url' local service. The url format for the results is probably always the
same using your job id ie.
http://bioinf.uni-greifswald.de/augustus/repository/AUG-1048179296/result
http://bioinf.uni-greifswald.de/augustus/repository/AUG-1048179296/input.fa
http://bioinf.uni-greifswald.de/augustus/repository/AUG-1048179296/codingsequence.fa
http://bioinf.uni-greifswald.de/augustus/repository/AUG-1048179296/aminoacidsequence.fa
A beanshell (a custom bit of code written in java type language) could
then be used to parse the actual results returned.
Other members of the team may have better suggestions but I am afraid they
are at a workshop until next week. Any other queries please get in touch.
If you have an example workflow then please send it to us. Also try
myexperiment.org where there are lots of example taverna workflows for
working with web services.
Cheers,
Ian
On 4 September 2012 20:10, Merche Castillo <[email protected]> wrote:
> Dear friends,
>
> I am working on a gene prediction workflow and as part of it I would like
> to include a REST service for a external gene prediction webserver,
> AUGUSTUS. I'm not very familiar with this kind of service and I'm not sure
> whether it can actually be done.
> This is the submission url:
>
> http://bioinf.uni-greifswald.de/augustus/submission
>
> Results are returned this way:
> http://bioinf.uni-greifswald.de/augustus/cabinet?folder=AUG-1048179296 ,
> where AUG-1048179296 is the job id.
>
> Five different outputs are provided: amino acid sequence, coding sequence,
> gff file, input sequence and an input link to the gbrowser. It would be
> great if I could send my sequence with the REST service and configure a
> tool to retrieve the output files from the returned link.
>
>
>
>
>
>
> Has anyone tried to do something similar?
>
>
> Otherwise I guess I will have no choice but to download the software and
> call it locally.
>
> Regards,
> Merche
>
--
Ian Dunlop
myGrid Team
School of Computer Science
University of Manchester
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