vignette checking woes

On Mar 26, 2015, at 8:50 AM, Martyn Plummer <plummerM at iarc.fr> wrote:

On Wed, 2015-03-25 at 15:12 -0500, Roger Koenker wrote:

Thierry,

I have this:

if (require(MatrixModels) && require(Matrix)) {
  X <- model.Matrix(Terms, m, contrasts, sparse = TRUE)

You have this in the current release, which does not show this problem
in the CRAN tests. This, and the fact that you can build the vignette
manually, suggests that there is a problem with your checking
environment.

Did you set up a special checking environment in ~/.R/check.Renviron ?
Does it set R_LIBS?

Martyn

in my function rqss()  I've tried variants of requireNamespace too without success.
If I understand properly model.Matrix is from MatrixModels but it calls 
sparse.model.matrix which is part of Matrix, and it is the latter function that I'm
not finding.  Maybe I should go back to the requireNamespace strategy again?

Roger

url:    www.econ.uiuc.edu/~roger            Roger Koenker
email    rkoenker at uiuc.edu            Department of Economics
vox:     217-333-4558                University of Illinois
fax:       217-244-6678                Urbana, IL 61801

On Mar 25, 2015, at 2:54 PM, Thierry Onkelinx <thierry.onkelinx at inbo.be> wrote:

Dear Roger,

How is Matrix loaded?

If you use sparse.model.matrix() inside a function from your package you need to declare it as Matrix::sparse.model.matrix()

Best regards,

ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest 
team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance 
Kliniekstraat 25
1070 Anderlecht
Belgium

To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher
The plural of anecdote is not data. ~ Roger Brinner 
The combination of some data and an aching desire for an answer does not ensure that a reasonable answer can be extracted from a given body of data. ~ John Tukey

2015-03-25 19:59 GMT+01:00 Roger Koenker <rkoenker at illinois.edu>:
I'm having trouble with R CMD check of my quantreg package.  All is well
until I get to:

checking running R code from vignettes ...
?rq.Rnw? ... failed
ERROR
Errors in running code in vignettes:
when running code in ?rq.Rnw?

when I see a snippet from the vignette code and then:

Loading required namespace: MatrixModels

When sourcing ?rq.R?:
Error: could not find function "sparse.model.matrix"
Execution halted

This is baffling to me since sparse.model.matrix is in the
namespace of Matrix and it should be loaded at this stage
since it is required by MatrixModels which has just been
pronounced "loaded".

I've verified that I can Sweave("rq.Rnw")
and texi2pdf("rq.tex", clean=TRUE) without any problem.

Any hints greatly appreciated, as always.

Roger


url:    www.econ.uiuc.edu/~roger            Roger Koenker
email    rkoenker at uiuc.edu            Department of Economics
vox:     217-333-4558                University of Illinois
fax:       217-244-6678                Urbana, IL 61801