Thanks for the advice,
this will certainly help a lot.
I think i will pass on the rserve interface :).
In my opinion it's a layer that isn't specifically written for python and to
be able to use it in a stable condition,
the interface probably needs a lot of maintenance overtime. If i have to
build the interface with existing code off-course the maintenance will also
come back to me.
behind rpy it seems like there are a lot of people that are smarter than me
:) so i will try to use this and assist in maintenance / development when i
have time and if it's needed.
also thanks for the examples and i will give a little more time in reading
the rpy documentation.
Regards,
Richard
On Jan 15, 2008 8:28 PM, Michael ODonnell <[EMAIL PROTECTED]> wrote:
> Richard, I have not been using rpy all that long, but it seems powerful to
> me. I suggest first reading rpy documentation and especially the sections on
> notation of underscores.
>
> Second, when I use scripts I generally create a file/script and then call
> the script from python/rpy. There are probably several ways to do this, but
> here is a general outline to get you started:
> from rpy import *
> regression_Rcode_File = "your_path_and_filename_here"
>
> #Source the script
> r.source(regression_Rcode_File)
>
> #Assign a name to the function in script and it can then be called as such
> #It is necessary to define the data in python and then pass via rpy as
> well
> fitted_model = r.lm(x, y, wgt)
>
>
> A good example that I referred to when I first started learning (This also
> includes an example for plotting):
>
> http://www2.warwick.ac.uk/fac/sci/moac/currentstudents/peter_cock/python/lin_reg/
>
>
> I hope this is helpful,
> mike
>
> ----- Original Message ----
> From: richard mendes <[EMAIL PROTECTED]>
> To: "RPy help, support and design discussion list" <
> rpy-list@lists.sourceforge.net>
> Sent: Tuesday, January 15, 2008 12:03:43 PM
> Subject: Re: [Rpy] Fwd: R while loop
>
> Hello Sean,
> The code that i was using was simply pasting the same code in python.
> r(" i<-1") # i should use the attach statement i think
> r("while (i <= length(groups) ) {")
> r("png(file=sprintf('MAplot%03d.png', i), width=600, height=600)")
> r("MAplot(rawAffyData, pairs=TRUE, plot.method='smoothScatter'
> which=groups[[i]])")
> r("dev.off ()")
> r("i<-i+1 }")
>
> But i expect that using rpy in such a way is completely wrong. I'm just
> testing what can be done by rpy
> Currently they have rserve running on a server that connects several app's
> to R. The only problem is that i couldn't
> find a interface between python and rserve.
>
> Besides the lack of the interface, rserve caused a lot of maintenance
> problems so i suggested to look further into rpy as
> interface between the apps and R.
>
> I can't give you the exact error because i'm not in the office now but i
> think it was something about ''unsubscribe error'' and it gave the first
> line till { between brackets.
>
> Hope this helps,
>
> Thanks
>
> Richard
>
> ps: if you need the exact error i will post it tomorrow ( for me :) )
>
>
>
>
>
> On Jan 15, 2008 7:51 PM, Sean Davis < [EMAIL PROTECTED]> wrote:
>
> >
> >
> > On Jan 15, 2008 1:38 PM, richard mendes <[EMAIL PROTECTED]>
> > wrote:
> >
> > >
> > > Hello Rpy users,
> > >
> > > Probably a very simple question but i couldn't find the answer in the
> > > documentation.
> > > i have a r script which uses a while loop, how should i execute this
> > > in rpy ?
> > >
> > > the script looks like:
> > >
> > > i<-1
> > >
> > > while (i <= length(groups) ) {
> > > png(file=sprintf('MAplot%03d.png', i), width=600,
> > > height=600)
> > > MAplot(rawAffyData, pairs=TRUE,
> > > plot.method='smoothScatter' which=groups[[i]])
> > > dev.off()
> > > i<-i+1 }
> > >
> > > if i normally run this in a r terminal everything will go fine but
> > > running it from rpy line by line will give a error.
> > >
> >
> > Hi, Richard.
> >
> > What error are you getting? And what is the python code that you are
> > using?
> >
> > Sean
> >
> >
> >
> >
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