Yes, it sounds like a possible solution. Maybe the string of the file
location could be set as the $UUID path for the server request, in order to
make the files not accessible for anyone in a shared folder. It can be
automatically defined as an input to the Rscript when the workflow is
enacted via t2server.
I'll try and I'll give you feedback.
As always, thanks.
Regards,
Albert Mascarell Creus
www.o2hlink.com
2010/11/24 Alan R Williams <[email protected]>
> On 24/11/2010 15:24, Albert Mascarell wrote:
> > Dears,
>
> Hello
>
> > Regarding to R shell iissues I would like to ask something: I want to
> > run an R script using T2server which generates a png plot as output. I
> > am able to retrieve a single plot if I run the Rscript once. However if
> > I want to loop through a data-file (example: for every ID in the data,
> > run some R code), the system is not able to generate different plots and
> > save in differents names, since it must be output as a variable
> > png(variable) --> outputport variable.
> > If I create a iteration counter and I loop inside Rscript, (let's say
> > from 1 to 10), my final workflow outputs are the iteration 10 and the
> > output of the 10th ID number, so it seems to be overwriting the files.
> >
> > Is there a clear solution for this looping issue. I tried to loop in the
> > PHP that calls the server, but this is not so clean and generates tomcat
> > saturation.
>
> It's an interesting problem. I don't see a way to do that in Taverna at
> the moment. I will add it into Jira.
>
> The best solution I can think of is to get the R script to write the
> images to files in a directory that is accessible via HTTP. The R
> script can return the URLs to the files as a String vector. You will
> then need to use the local service get image from URL to download the
> images. It is not a nice solution but it should work.
>
> > Thanks,
> >
> >
> > Regards,
> >
> > Albert Mascarell Creus
> > www.o2hlink.com <http://www.o2hlink.com>
>
> Alan
>
>
>
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