Thanks, I prefer leave the warnings too. I was just afraid that the problem was
in the data (and was checking everything again).

I also tried the bobyqa setting and goes slightly faster (thanks!).

Juan


On Thu, Oct 17, 2013 at 11:40 AM, Ben Bolker <bbolker@gmail.com> wrote:

> Juan Kamienkowski <jkamienk@...> writes:
>
> >
> > Hi,
> >
> > I moved to lmer 1.0-4 and R 3.0.2. Now lmer() and glmer() functions are
> > working much slower than before, and I get the following warning message,
> > which I suspect is related to that.
> >
> > Warning in rankMatrix(X) :
> >   rankMatrix(<large sparse Matrix>, method = 'tolNorm2') coerces to dense
> > matrix.
> >   Probably should rather use  method = 'qrLINPACK' !?
> >
> > Do you have any advice on this? Where can I change the method of the
> > rankMatrix()?
> >
>
>
>   This is a known bug, actually in Matrix: we hope to fix it soon,
> but it will require a coordinated release of Matrix, RcppEigen,
> and lme4.  You can ignore it for now, or use suppressWarnings() if
> it's really annoying you (although that will suppress *all* warnings,
> so it may not be a good idea).
>
>   Sorry about things slowing down: can you tell us more about your
> use case?  Have you tried switching from the default Nelder_Mead to
> the (sometimes faster) bobyqa setting?  (see ?lmerControl)
>
>   Ben Bolker
>
> _______________________________________________
> R-sig-mixed-models@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-sig-mixed-models
>



-- 
Juan E Kamienkowski
Laboratorio de Neurociencia Integrativa
Departamento de Fisica, FCEN-UBA
Ciudad Universitaria, Pabellon I
(1428) Buenos Aires, Argentina
Phone: (54-11) 4576 3300 (282)
Fax: (54-11) 4576 3357
http://neurociencia.df.uba.ar/ <http://www.neurociencia.df.uba.ar/>

Laboratorio de Inteligencia Artificial Aplicada
Departamento de Computación, FCEN-UBA
Ciudad Universitaria, Pabellon I
(1428) Buenos Aires, Argentina
http://liaa.dc.uba.ar/

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