Thanks a lot for your answers. I tried to set the -t value to 32 in
peakranger but nothing really happens...it still runs on 1 thread even so
it says -t 32 in the execution line  I guess I need to contact the author.

Thanks for your help!

Alex

On Tue, Mar 26, 2013 at 2:01 PM, Peter Cock <p.j.a.c...@googlemail.com>wrote:

> On Tue, Mar 26, 2013 at 10:15 AM, Alexander Kurze
> <alexander.ku...@gmail.com> wrote:
> > Hi there,
> >
> > we have a 32 core server but I realised that a lot of programs are only
> > using a fraction of that. I was able to adjust bowtie, bowtie2 and
> Tophat to
> > use all of the cores but couldn't find an thread/core option for Macs14,
> > Macs2 or PeakRanger. Does anyone know if these programs are capable of
> multi
> > threading?
> > If yes, where do I adjust it? Would be nice to have some global parameter
> > set in the universewgsi.ini file.
> >
> > Thanks,
> >
> > Alex
>
> A more configurable thread setting has come up several times -
> something that could integrate nicely with cluster back ends for
> scheduling would be ideal. Some of my wrappers use $NSLOTS
> if set, and if not default to four threads. This works very nicely
> under SGE where you can set the thread count via the runner
> settings in universewgsi.ini - but this is not really general enough.
>
> For now however, you do generally have to tweak the wrappers
> as you have done to edit any hard coded thread setting :(
>
> Peter
>



-- 
Alexander Kurze
70 Sunningwell Road
Oxford, OX1 4SX

Tel:   +44 1865-243-609
Mobile:  +44 7962-425-865
___________________________________________________________
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:
  http://lists.bx.psu.edu/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/mailinglists/

Reply via email to