[Rd] Competing with one's own work
rvaradhan at jhmi.edu
Fri Dec 3 20:20:51 CET 2010
"The decision about whether it belongs in a package or in base R is
about who should maintain the code."
Ok. I understand it now.
Ravi Varadhan, Ph.D.
Division of Geriatric Medicine and Gerontology School of Medicine Johns
Ph. (410) 502-2619
email: rvaradhan at jhmi.edu
From: Duncan Murdoch [mailto:murdoch.duncan at gmail.com]
Sent: Friday, December 03, 2010 2:19 PM
To: Ravi Varadhan
Cc: nashjc at uottawa.ca; r-devel at r-project.org
Subject: Re: [Rd] Competing with one's own work
On 03/12/2010 12:01 PM, Ravi Varadhan wrote:
> Dear Duncan,
> What constitutes a convincing argument for making significant changes?
I don't think there's any answer to that other than "an argument that
convinces someone to make the changes". What would convince you to work
on a problem? Your answer is very different from mine, and mine is
different from that of anyone else in the core group.
> Taking the example of optimization algorithms (say, for smooth objective
> functions), how does one make a convincing argument that a particular
> of algorithms are "better" than another class? This can be a difficult
> but quite doable with good benchmarking practices.
I don't see how that's relevant. That's an argument to make to users,
not to the core group. A user wants to use the best optimizer for
his/her own problem. The core group wants functions in base R that we
> Supposing for the moment that such a convincing argument has been made, is
> that sufficient to get the R-core to act upon it?
By definition, yes.
> Are there compelling
> factors other than just "algorithm A is better than algorithm B"?
Yes. The decision about whether it belongs in a package or in base R is
about who should maintain the code. If I think it is fantastic code,
but you will do a better job of maintaining it than I will, then there's
no way I'd put it in base R.
> I'd think that the argument is relatively easy if the need for the change
> driven by consumer demand. But, even here I am not sure how to make an
> argument to the R-core to consider the big changes. For example, there is
> reasonable demand for constrained (smooth) optimization algorithms in R
> (based on R-help queries). Currently, there are only 3 packages that can
> handle this. However, in the base distribution only `constrOptim'
> is provided, which cannot handle anything more than linear, inequality
> constraints. I think that the base distribution needs to have a package
> constrained optimization that can handle linear/nonlinear and
> equality/inequality constraints.
As Doug said, "I don't see anything in what you are proposing that could
not be incorporated in a contributed package."
I think I answered your followup question above: the rationale for
including it in base R is because someone in the core team is in a
better position to maintain the code than an outside package maintainer
> John, thanks for raising an important issue.
> Thanks& Best,
> Ravi Varadhan, Ph.D.
> Assistant Professor,
> Division of Geriatric Medicine and Gerontology School of Medicine Johns
> Hopkins University
> Ph. (410) 502-2619
> email: rvaradhan at jhmi.edu
> -----Original Message-----
> From: r-devel-bounces at r-project.org [mailto:r-devel-bounces at r-project.org]
> On Behalf Of Duncan Murdoch
> Sent: Friday, December 03, 2010 11:13 AM
> To: nashjc at uottawa.ca
> Cc: r-devel at r-project.org
> Subject: Re: [Rd] Competing with one's own work
> On 03/12/2010 10:57 AM, Prof. John C Nash wrote:
> > No, this is not about Rcpp, but a comment in that overly long
> raised a question
> > that has been in my mind for a while.
> > This is that one may have work that is used in R in the base
> and there are
> > improvements that should be incorporated.
> > For me, this concerns the BFGS, Nelder-Mead and CG options of optim(),
> which are based on
> > the 1990 edition (Pascal codes) of my 1979 book "Compact numerical
> methods...", which were
> > themselves derived from other people's work. By the time Brian Ripley
> that work (with
> > permission, even though not strictly required. Thanks!) there were
> > improvements to these same algorithms (mainly bounds and masks) in the
> BASIC codes of the
> > 1987 book by Mary Walker-Smith and I. However, BASIC to R is not
> I'd wish on
> > anyone.
> > Now there are some R packages, including some I've been working on,
> do offer
> > improvements on the optim() offerings. I would not say mine are yet
> ready for
> > incorporation into the base, but they are pretty close. Equally I think
> some of the tools
> > in the base should be deprecated and users encouraged to try other
> routines. It is also
> > getting more and more important that novice users be provided with
> sensible guidance and
> > robust default settings and choices. In many areas, users are faced
> more choice than
> > is efficient for the majority of problems.
> > My question is: How should such changes be suggested / assisted? It
> to me that this
> > is beyond a simple feature request. Some discussion on pros and cons
> be appropriate,
> > and those like myself who are familiar with particular tools can and
> should offer help.
> > Alternatively, is there a document available in the style "Writing R
> Extensions" that has
> > a title like "How the R Base Packages are Updated"? A brief search was
> > I'm happy to compete with my own prior work to provide improvements. It
> would be nice to
> > see some of those improvements become the benchmark for further
> There are answers at many different levels to your questions. The
> simplest is that base packages are part of R, so they get updated when a
> member of R Core updates them, and the updates get released when a new
> version of R is released.
> So if you want a change, you need to convince a member of the core to
> make it. Pointing out a bug is the easiest way to do this: bugs
> usually get fixed quickly, if they are clearly demonstrated.
> If you want a bigger change, you need to make a convincing argument in
> favour of it. If you pick a topic that is of particular interest to one
> core member, and you can convince him to make the change, then it will
> happen. If pick some obscure topic that's not of interest to anyone,
> you'll need a very strong argument to make it interesting. Part of any
> of these arguments is explaining why the change needs to be made to the
> base, why it can't just be published in a contributed package. (That's
> why bug fixes are easy, and big additions to the base packages are not.)
> Duncan Murdoch
> R-devel at r-project.org mailing list
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