2011/9/15 Mikel Egaña Aranguren <meg...@fi.upm.es>:
> Hi;
> I'm sure this has been mentioned before but perhaps it has been fixed.

Not yet, but you can follow this issue:

> I'm writting a wrapper of a Java tool for Galaxy. The tool throws info to
> stderr even when working properly, and Galaxy interprets it as a bug. Is
> there any way of redirecting stderr (It seems that normal UNIX redirection
> to a file does not work) or making Galaxy ignore it?

I think redirection of stderr to /dev/nul should work fine,
remember to use the HTML escaping for the greater than.

The usual solution is a wrapper script which captures stderr,
and checks the return code for an error condition. e.g. Look
at the NCBI BLAST+ wrappers.


Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:


Reply via email to