Re: [R] probleme with R CMD check

From: <cgenolin_at_u-paris10.fr>
Date: Fri, 18 Jul 2008 14:22:19 +0200

> CG> --- 8< ----------------- 00check.log ------------------
> CG> * using log directory 'C:/Documents and Settings/Christophe/Mes
> CG> documents/Docs articles polys résumés/R/tutorial S4/packClassic.Rcheck'
>
> I see many directories with spaces (" ") inside.
> This used to cause all kind of problems in the past,
> and has been explicitly discouraged from in "R for windows"
> instructions.

ACCENT !!! é, è and ê !!!!! Fucking Frenchi habit to put them everywere !!!!!

You gave me the idea by suggesting that was the path that was wrong That was it. But my other package is in

C:\Documents and Settings\Administrator\My Documents\Recherche\Trajectoires\kmeal

So it can not be the space. It was the accent

Obviouly, to all my student, I am alway saying that they should *NOT* use accent in the path nor in the fiels name... I hope none off receive the r-help...

Merci beaucoup pour ton aide.

Christophe

> But really I have no idea if that's the cause of your problem.
> We *could* try your source package *if* it was available from a
> URL.
>
> Bonnes salutations,
> Martin
>
>
> CG> * using R version 2.7.1 (2008-06-23)
> CG> * using session charset: ISO8859-1
> CG> * checking for file 'packClassic/DESCRIPTION' ... OK
> CG> * checking extension type ... Package
> CG> * this is package 'packClassic' version '1.0'
> CG> * checking package name space information ... OK
> CG> * checking package dependencies ... OK
> CG> * checking if this is a source package ... OK
> CG> * checking whether package 'packClassic' can be installed ... OK
> CG> * checking package directory ... OK
> CG> * checking for portable file names ... OK
> CG> * checking DESCRIPTION meta-information ... OK
> CG> * checking top-level files ... OK
> CG> * checking index information ... OK
> CG> * checking package subdirectories ... WARNING
> CG> Subdirectory 'data' contains no data sets.
> CG> * checking R files for non-ASCII characters ... OK
> CG> * checking R files for syntax errors ... OK
> CG> * checking whether the package can be loaded ... OK
> CG> * checking whether the package can be loaded with stated
> dependencies ... OK
> CG> * checking whether the name space can be loaded with stated
> dependencies
> CG> ... OK
> CG> * checking for unstated dependencies in R code ... WARNING
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> See the information on DESCRIPTION files in the chapter 'Creating R
> CG> packages' of the 'Writing R Extensions' manual.
> CG> * checking S3 generic/method consistency ... WARNING
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> See section 'Generic functions and methods' of the 'Writing R
> Extensions'
> CG> manual.
> CG> * checking replacement functions ... WARNING
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> In R, the argument of a replacement function which corresponds
> to the right
> CG> hand side must be named 'value'.
> CG> * checking foreign function calls ... WARNING
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> See the chapter 'System and foreign language interfaces' of
> the 'Writing R
> CG> Extensions' manual.
> CG> * checking R code for possible problems ... NOTE
> CG> Erreur : aucun package nommé 'packClassic' n'existe
> CG> Séquence d'appel :
> CG> 2: stop(txt, domain = NA)
> CG> 1: library(package, lib.loc = lib.loc, character.only = TRUE,
> verbose =
> CG> FALSE)
> CG> Exécution arrêtée
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> * checking Rd files ... OK
> CG> * checking Rd cross-references ... WARNING
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> Rd_aliases -> .find.package
> CG> Exécution arrêtée
> CG> * checking for missing documentation entries ... WARNING
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> All user-level objects in a package should have documentation entries.
> CG> See the chapter 'Writing R documentation files' in manual 'Writing R
> CG> Extensions'.
> CG> * checking for code/documentation mismatches ... WARNING
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> * checking Rd \usage sections ... WARNING
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> Functions with \usage entries need to have the appropriate
> \alias entries,
> CG> and all their arguments documented.
> CG> The \usage entries must correspond to syntactically valid R code.
> CG> See the chapter 'Writing R documentation files' in manual 'Writing R
> CG> Extensions'.
> CG> Erreur dans .find.package(package, lib.loc) :
> CG> aucun package nommé 'packClassic' n'existe
> CG> Calls: <Anonymous> -> .find.package
> CG> Exécution arrêtée
> CG> The \usage entries for S3 methods should use the \method
> markup and not
> CG> their full name.
> CG> See the chapter 'Writing R documentation files' in manual 'Writing R
> CG> Extensions'.
> CG> * checking data for non-ASCII characters ... OK
> CG> * creating packClassic-Ex.R ... OK
> CG> * checking examples ... ERROR
> CG> Running examples in 'packClassic-Ex.R' failed.
>
>
> CG> --- 8< -----------------------
> c> I find the problem: the name of my base directory (the
> c> one that contain R, man and test) was not the same than
> c> the name of the package...
> >>
> >> Aha!
> >>
> c> I thaught this was allowed, I guess I was wrong.
> >>
> >> It has been documented to be allowed; and it has been, but
> >> in some circumstances, R CMD check gave wrong warnings, as you
> >> found.
> >>
> >> I had found and fixed this buglet on May 22, both for R-devel
> >> and R-patched (which will become R 2.7.1 ...)
> >>
> >> Could you try 'R-patched' and confirm that the problem is
> >> solved?
> >>
> >> Regards,
> >> Martin
> >>
> >>
> c> Christophe
> >>
> >> >>>>>>> "c" == cgenolin <cgenolin_at_u-paris10.fr> on Tue, 03
> >> >>>>>>> Jun 2008 09:55:15 +0200 writes:
> >> >>
> >> >> >> provide commented, minimal, self-contained,
> >> >> reproducible code. >> Please do -- both --
> >> >>
> c> Sorry... Usualy, I do...
> >> >>
> c> --- 8< ------------ userA <- function(x)x+1 privateA <-
> c> function(x)x+2 .userB <- function(x)x+10 .privateB <-
> c> function(x)x+20 userC <- function(x)userA(privateA(x))
> c> privateC <- function(x).userB(.privateB(x)) userD <-
> c> function(x)userA(.userB(x)) privateD <-
> c> function(x)privateA(.privateB(x)) --- 8< ------------
> >> >>
> >> >> If I execute these in an empty R session, and do
> >> >> package.skeleton("EXpkg") system("R CMD check EXpkg")
> >> >>
> >> >> I can NOT see the problem you describe below. Probably
> >> >> you'd rather should upload the <pkg>.tar.gz to a public
> >> >> place, to make your problem reproducible.
> >> >>
> >> >> Martin
> >> >>
> >> >> >>>>>>> "c" == cgenolin <cgenolin_at_u-paris10.fr> >>>>>>>
> >> >> on Tue, 03 Jun 2008 00:32:13 +0200 writes:
> >> >> >>
> c> Hi the list. I got a probleme with R CMD check. I run a
> c> package.skeleton on a very simple code (four toy
> c> function, no probleme with the R CMD build). But on the R
> c> CMD check packClassique, I get :
> >> >> >>
> c> * checking for unstated dependencies in R code
> c> ... WARNING Erreur dans .find.package(package, lib.loc) :
> c> aucun package nommé 'packClassique' n'est trouvé Calls:
> c> <Anonymous> -> .find.package Excecution hated
> c> [French=Exécution arrêtée]
> >> >> >>
> c> See the information on DESCRIPTION files in the chapter
> c> 'Creating R packages' of the 'Writing R Extensions'
> c> manual. * checking S3 generic/method consistency
> c> ... WARNING Erreur dans .find.package(package, lib.loc) :
> c> aucun package nommé 'packClassique' n'est trouvé Calls:
> c> <Anonymous> -> .find.package Exécution arrêtée
> >> >> >>
> c> And so on.
> >> >> >>
> c> Any idea on what is wrong ?
> >> >> >>
> >> >> >> No.
> >> >> >>
> c> Christophe
> >> >> >>
> c> ______________________________________________
> c> R-help_at_r-project.org mailing list
> c> https://stat.ethz.ch/mailman/listinfo/r-help
> >> >> >>
> c> PLEASE do read the posting guide
> >> >> >> http://www.R-project.org/posting-guide.html
> c> and provide commented, minimal, self-contained,
> c> reproducible code.
> >> >> >>
> >> >> >> Please do -- both --
> >> >> >>
> >> >> >> Martin
> >> >> >>
> >> >>
> >> >>
> >> >>
> c> ----------------------------------------------------------------
> c> Ce message a ete envoye par IMP, grace a l'Universite
> c> Paris 10 Nanterre
> >> >>
> >> >>
> >> >>
> >>
> >> ______________________________________________
> c> R-help_at_r-project.org mailing list
> c> https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do
> c> read the posting guide
> c> http://www.R-project.org/posting-guide.html and provide
> c> commented, minimal, self-contained, reproducible code.
> >>
> >>
>



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https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. Received on Fri 18 Jul 2008 - 12:28:08 GMT

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