[pymvpa] RPy and ENET

[Per B. Sederberg]

On Mon, Jan 11, 2010 at 9:33 AM, Michael Hanke <michael.hanke at gmail.com> wrote:
> On Mon, Jan 11, 2010 at 09:31:45AM -0500, Michael Hanke wrote:
>> On Mon, Jan 11, 2010 at 08:27:15AM -0500, Per B. Sederberg wrote:
>> > exists('rpy2', raiseException=True); import rpy2.robjects;
>> > rpy2.robjects.r.library('glmnet')
>> >
>> > You just ran the last two and it works.  What happens when you run the
>> > first?  Perhaps it is something in the exists method...  I assume if
>> > you can run the last two, then you can also run:
>> >
>> > import rpy2 as __
>> >
>> > which is the check for rpy2...
>> >
>> > What happens if you change the glmnet check to be just:
>> >
>> > import rpy2.robjects; rpy2.robjects.r.library('glmnet')
>>
>> The problem was RPy1 -- they didn't play nicely together. Once I removed
>> RPy1, things were fine.
>>
>> That raises the question, what we should do with the RPy1 dependent
>> code? Per, could you port ithe rest to RPy2 as well (possibly removing ENET, if
>> it is fully replaced by GLMNET now)?
>>
>>
>> Sidenote: If refactored the glmnet tests a bit and included them into
>> the main battery. That revealed a few problems that I am addressing
>> right now -- will push what I have now nevertheless and push the fixes
>> later on.
>
> One more: I get lots of this:
>
> Warning message:
> from glmnet fortran code - Convergence for 50th lambda value not reached after maxit=100 iterations; solutions for larger lambdas returned
>
> Is there anything we can do about that?
>
>

I'll look into it to find out what it really means.  The
classification is still working well in the cases I've seen that, so I
don't know what it's telling us that is actually a problem.  It's
frustrating that you can't inhibit these R messages.

P

> michael
>
> --
> GPG key:  1024D/3144BE0F Michael Hanke
> http://mih.voxindeserto.de
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