2011/6/2 Nate Coraor <nate(a)bx.psu.edu>:
I haven't done anything with this code yet, but I wanted to let you know
that we'll eventually be adding it, I'm just going to change the
implementation slightly. I'd like to merge the functionality of the csv
into an xml config I'm already working on (but haven't yet fully decided
on the syntax). And it should be possible for tools to access these
parameters in the command line template. A lot of our NGS tools have
the number of threads to use hardcoded in the tool config, which is bad.
On a related point, I've previously suggested a $variable could be defined
for use in tool XML wrappers to set the number of threads. This number
could come from a general configuration file, or perhaps via the cluster
settings - the point is the tool doesn't need to know, it just gets told how
many threads it is allowed.