[Rd] as(<dgCMatrix>, "dgTMatrix")' is deprecated.

[Koenker, Roger W]

There is a call to mosek and I assumed that this wasn’t going to be helpful for most R-devel recipients.  I tried Duncan’s very reasonable suggestion about options() but it didn’t produce the desired error, so perhaps this isn’t really a warning  but something else???

For those who might have rmosek installed,  I’m doing:

library(REBayes)
demo(GLmix1)

Thanks,
Roger


> On Oct 3, 2023, at 6:17 PM, Martin Maechler <maechler using stat.math.ethz.ch> wrote:
> 
>>>>>> Duncan Murdoch 
>>>>>>    on Tue, 3 Oct 2023 12:59:10 -0400 writes:
> 
>> On 03/10/2023 12:50 p.m., Koenker, Roger W wrote:
>>> I’ve been getting this warning for a while now (about
>>> five years if memory serves) and I’m finally tired of it,
>>> but also too tired to track it down in Matrix.  As far as
>>> I can grep I have no reference to either deprecated
>>> object, only the apparently innocuous Matrix::Matrix(A,
>>> sparse = TRUE).  Can someone advise, Martin perhaps?  I
>>> thought it might come from Rmosek, but mosek folks don’t
>>> think so.
>>> https://urldefense.com/v3/__https://groups.google.com/g/mosek/c/yEwXmMfHBbg/m/l_mkeM4vAAAJ__;!!DZ3fjg!71re8ipw9fFStkMab0wGuPNSzSaAhPI5vwxd1BCQ7a55mYiRpAq2prn9-wREqKL_G2uBYboXISQfxZYCZ9AFxCnwxdzqTw$ 
> 
>> A quick scan of that discussion didn't turn up anything
>> relevant, e.g. a script to produce the warning.  Could you
>> be more specific, or just post the script here?
> 
>> In general, a good way to locate the source of a warning
>> is to set options(warn=2) to turn it into an error, and
>> then trigger it.  The traceback from the error will
>> include a bunch of junk from the code that catches the
>> warning, but it will also include the context where it was
>> triggered.
> 
>> Duncan Murdoch
> 
> Indeed.
> 
> But Roger is right that it in the end, (almost surely) it is
> from our {Matrix} package.
> 
> Indeed for several years now, we have tried to make the setup
> leaner (and hence faster) by not explicitly define coercion
> from <everything> to <everything>  because  the size of
> <everything> is here about 200, and we don't want to have to provide
> 200^2 = 40'000  coercion methods.
> 
> Rather, Matrix package users should use to high level abstract Matrix
> classes such as "sparseMatrix" or "CsparseMatrix" or
> "TsparseMatrix" or "dMatrix", "symmetricMatrix".
> 
> In the case of  as(<dgCMatrix>, "dgTMatrix") , if you
> replace "dgTMatrix" by "TsparseMatrix"
> the result will be the same but also work in the future when the
> deprecation may have been turned into a defunctation ...
> 
> Martin