From th|erry@onke||nx @end|ng |rom |nbo@be  Fri Sep  6 19:18:53 2019
From: th|erry@onke||nx @end|ng |rom |nbo@be (Thierry Onkelinx)
Date: Fri, 6 Sep 2019 19:18:53 +0200
Subject: [Rd] Cryptic error message from namespaceExport
In-Reply-To: <CAOQ5Nycz=ObY9uB2XH4AG8bDRPNXVp6_T1+nkma8xVty6cVO4g@mail.gmail.com>
References: <CAJuCY5yZe=T=kn0dbwTi=aLNJnfgrGWBo8n0yCH+RY23fBh5ug@mail.gmail.com>
 <CAOQ5Nycz=ObY9uB2XH4AG8bDRPNXVp6_T1+nkma8xVty6cVO4g@mail.gmail.com>
Message-ID: <CAJuCY5yP1RT_OiYRG=1vCnxZZ-d9Xb+1qLxm7g9J_2EF_eyBzA@mail.gmail.com>

Dear Michael,

my package has setOldClass("inla") and the NAMESPACE
contains exportClasses(inla) and importFrom(INLA, inla.posterior.sample)

the old version of INLA uses the S3 class "inla" but does not export it.
the new version of INLA has setOldClass("inla") and the NAMESPACE
contains exportClasses(inla)

installing my package in combination with an older INLA version works

install.packages("
https://inla.r-inla-download.org/R/stable/src/contrib/INLA_18.07.12.tar.gz",
repos = NULL)
remotes::install_github("inbo/inlatools", upgrade = FALSE, force = TRUE)

installing my package with a recent INLA versions yields the error

install.packages("
https://inla.r-inla-download.org/R/stable/src/contrib/INLA_19.09.03.tar.gz",
repos = NULL)
remotes::install_github("inbo/inlatools", upgrade = FALSE, force = TRUE)

Warning: INLA is a very large package. The old version is 87 MB, the new
one 250 MB

Best regards,

ir. Thierry Onkelinx
Statisticus / Statistician

Vlaamse Overheid / Government of Flanders
INSTITUUT VOOR NATUUR- EN BOSONDERZOEK / RESEARCH INSTITUTE FOR NATURE AND
FOREST
Team Biometrie & Kwaliteitszorg / Team Biometrics & Quality Assurance
thierry.onkelinx at inbo.be
Havenlaan 88 bus 73, 1000 Brussel
www.inbo.be

///////////////////////////////////////////////////////////////////////////////////////////
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
///////////////////////////////////////////////////////////////////////////////////////////

<https://www.inbo.be>


Op vr 6 sep. 2019 om 17:16 schreef Michael Lawrence <
lawrence.michael at gene.com>:

> Just to clarify, your package is exporting a class that is not
> defined? Or is it exporting a class that is defined by a dependency
> and then masked by setOldClass()? A simple reproducible example would
> help.
>
> On Fri, Sep 6, 2019 at 7:48 AM Thierry Onkelinx via R-devel
> <r-devel at r-project.org> wrote:
> >
> > Dear all,
> >
> > Today I got this error message (R 3.6.1) when installing my package:
> >
> > Error: package or namespace load failed for ?inlatools? in
> > namespaceExport(ns, exports):
> >  undefined exports: .__C__inla
> >
> > My package was using setOldClass("inla") and exported the "inla" class
> via
> > the NAMESPACE. It imports functions from the INLA package. Older versions
> > of the INLA package did not export the "inla" class. Hence the use of
> > setOldClass().
> > The current version of the INLA package does export the "inla" class
> > through it NAMESPACE. This triggered the error described above.
> >
> > Is the possible to improve this error message? The current message is
> > misleading as neither packages contain the string ".__C__inla"
> >
> > Best regards,
> >
> > ir. Thierry Onkelinx
> > Statisticus / Statistician
> >
> > Vlaamse Overheid / Government of Flanders
> > INSTITUUT VOOR NATUUR- EN BOSONDERZOEK / RESEARCH INSTITUTE FOR NATURE
> AND
> > FOREST
> > Team Biometrie & Kwaliteitszorg / Team Biometrics & Quality Assurance
> > thierry.onkelinx at inbo.be
> > Havenlaan 88 bus 73, 1000 Brussel
> > www.inbo.be
> >
> >
> ///////////////////////////////////////////////////////////////////////////////////////////
> > 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
> >
> ///////////////////////////////////////////////////////////////////////////////////////////
> >
> > <https://www.inbo.be>
> >
> >         [[alternative HTML version deleted]]
> >
> > ______________________________________________
> > R-devel at r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-devel
>
>
>
> --
> Michael Lawrence
> Scientist, Bioinformatics and Computational Biology
> Genentech, A Member of the Roche Group
> Office +1 (650) 225-7760
> michafla at gene.com
>
> Join Genentech on LinkedIn | Twitter | Facebook | Instagram | YouTube
>

	[[alternative HTML version deleted]]



[Rd] Cryptic error message from namespaceExport
Thierry Onkelinx