RE: [Soaplab-users] Embossdata soaplab service

[Marc L. <Mar...@DE...>]

> Marc,
>    I am today (and part of the tomorrow) on email but then I=20
> will travelling to Europe and I am not sure how often I will=20
> be able to read emails. So bear please with me if I am delayed.
No problem.
But I am afraid I bumped into another 'problem'. I used a workaround to
get to the content of Cut.index. I just copied it to the web folder so
that is fetched by taverna using that url. OK so far so good, the user
can select a codon table and the resulting string like "Ebacst.cut" is
passed to the next processor. The string value is passed to the
cfile_url port of backtranseq. Unfortunately the execution fails because
the Eacc.cut file can not be found.
The issue becomes clear when you look at the report and more precisely
at the -cfile argument:

Report:
Name: backtranseq
Started: 05-09-26 15:48:09
Program and parameters:
backtranseq
/transfer/results/soaplab/unknown/Projects/default/Data/in1127742489009
/transfer/results/soaplab/unknown/Projects/default/Data/out1127742489011
-cfile
/transfer/results/soaplab/unknown/Projects/default/Data/Ebacst.cut
--- end of parameters

As you can see it is not the string "Ebacst.cut" that is passed as an
argument but actually
"/transfer/results/soaplab/unknown/Projects/default/Data/Ebacst.cut",
which does not exist. I expected the first behaviour not the latter. Or
am I using it the wrong way ?
Cheers,
Marc