On Saturday, July 30, 2011, Shantanu Pavgi <pavgi(a)uab.edu> wrote:
The -V option is not for verbose mode but for exporting your
shell environment. Refer to qsub manual for details:
"Specifies that all environment variables active within the
qsub utility be exported to the context of the job."
We are already using it in our configuration as needed.
That is such a common need it would be great to have
it in the Galaxy documentation as an example of using
native SGE options with drmaa:// in universe_wsgi.ini
Plus the http://linux.die.net/man/5/sge_complex
I think we are having problem with the galaxy (or drmaa
Python lib) parsing correct drmaa/SGE messages and
not with the drmaa URL configuration. Thoughts?
I'd try adding a few debug log/print statements to the
code to try and diagnose it.