[R-sig-Geo] Problems with loading the "mgcv" package

Tomislav Hengl T.Hengl at uva.nl
Thu Jun 11 11:32:27 CEST 2009 

Hi Edzer,

I am sorry about that. I have been using exclusively Tinn-R to write R scripts now over a year (once
you install Tinn-R over R, you do need to set-up the Rprofile; Tinn-R works only with the MDI mode
of Rgui).

I have just installed a somewhat older version of R (2.7) and tried loading the package "spatstat"
in a "clean session" and it does load without a problem.

I assume that the problem might be with my Rprofile and/or the Tinn-R integration. Tinn-R does need
to load some packages:

> library(TinnR) 
> library(svSocket)

which might conflict with "mgcv". I did not have problems with Tinn-R with the latest version of
R/Tinn-R, so it is a new thing.

I will try to contact also the Tinn-R people (http://www.sciviews.org/Tinn-R/). 

thanks,

Tom Hengl 
http://home.medewerker.uva.nl/t.hengl/

> -----Original Message-----
> From: Edzer Pebesma [mailto:edzer.pebesma at uni-muenster.de]
> Sent: Thursday, June 11, 2009 11:02 AM
> To: Tomislav Hengl
> Cc: r-sig-geo at stat.math.ethz.ch
> Subject: Re: [R-sig-Geo] Problems with loading the "mgcv" package
> 
> In general, before you post questions of this kind to the list, it makes
> sense to see if the packages load on your platform in a clean session,
> e.g. started with R --vanilla. (Or, anyhow, without automatically
> loading a data base or Rprofile type modified local configurations).
> Then you know where to search!
> --
> Edzer
> 
> Tomislav Hengl wrote:
> > Hi guys,
> >
> > Thanks for your reply (and apologies for a delay - it was night time in Europe).
> >
> > I am running Windows XP, R version 2.9.0. I have just reinstalled spatstat with dependencies:
> >
> >
> >> install.packages("spatstat", dependencies=TRUE)
> >>
> >
> > Then I tried:
> >
> >
> >> library(spatstat)
> >>
> >
> > and I get the same error:
> >
> >
> >> Loading required package: mgcv
> >> Error in formatDL(nm, txt, indent = max(nchar(nm, "w")) + 3) :
> >>
> > ...
> >
> > then I tried to re-install the mgcv package but this gives me an error:
> >
> >
> >> Warning: cannot remove prior installation of package 'mgcv'
> >>
> > *this is version 1.5-5
> >
> > When I look under my \library\mgcv\
> >
> > I can still see a dll file which can not be removed.
> >
> > Maybe there is a problem that I am using a customized Rprofile? My Rprofile is available at:
> >
> > http://spatial-analyst.net/scripts/Rprofile.site
> >
> >
> > Thanx!
> >
> > Tom Hengl
> > http://home.medewerker.uva.nl/t.hengl/
> >
> >
> >
> >
> >> -----Original Message-----
> >> From: Dylan Beaudette [mailto:debeaudette at ucdavis.edu]
> >> Sent: Wednesday, June 10, 2009 7:40 PM
> >> To: r-sig-geo at stat.math.ethz.ch
> >> Cc: Hengl, T.
> >> Subject: Re: [R-sig-Geo] Problems with loading the "mgcv" package
> >>
> >> works for me:
> >>
> >> library(spatstat)
> >> sessionInfo()
> >>
> >> Loading required package: mgcv
> >> This is mgcv  1.5-5 . For overview type `help("mgcv-package")'.
> >> Loading required package: gpclib
> >> General Polygon Clipper Library for R (version 1.4-4)
> >>         Type 'class ? gpc.poly' for help
> >>
> >> Loading required package: deldir
> >> deldir 0.0-8
> >>
> >> spatstat 1.15-3
> >>
> >>
> >> R version 2.9.0 (2009-04-17)
> >> i686-pc-linux-gnu
> >>
> >> locale:
> >> LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-
> >> 8;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=e
> >> n_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
> >>
> >> attached base packages:
> >> [1] stats     graphics  grDevices utils     datasets  methods   base
> >>
> >> other attached packages:
> >> [1] spatstat_1.15-3 deldir_0.0-8    gpclib_1.4-4    mgcv_1.5-5
> >>
> >> loaded via a namespace (and not attached):
> >> [1] grid_2.9.0      lattice_0.17-25 nlme_3.1-92
> >>
> >> On Wednesday 10 June 2009, Marcelino de la Cruz wrote:
> >>
> >>> Hi Tom,
> >>>
> >>> I can load sptastat and mgcv without problem (see below).
> >>>
> >>> Could you please send us information about your environment?
> >>>
> >>>
> >>> Cheers,
> >>>
> >>> Marcelino
> >>>
> >>>  > library(spatstat)
> >>>
> >>> Loading required package: mgcv
> >>> This is mgcv  1.5-5 . For overview type `help("mgcv-package")'.
> >>> Loading required package: gpclib
> >>> General Polygon Clipper Library for R (version 1.4-3)
> >>>          Type 'class ? gpc.poly' for help
> >>> Loading required package: deldir
> >>> deldir 0.0-8
> >>>
> >>> spatstat 1.15-3
> >>> Type 'help(spatstat)' for information
> >>>
> >>>  > sessionInfo()
> >>>
> >>> R version 2.9.0 (2009-04-17)
> >>> i386-pc-mingw32
> >>>
> >>> locale:
> >>> LC_COLLATE=Spanish_Spain.1252;LC_CTYPE=Spanish_Spain.1252;LC_MONETARY=Spani
> >>> sh_Spain.1252;LC_NUMERIC=C;LC_TIME=Spanish_Spain.1252
> >>>
> >>> attached base packages:
> >>> [1] stats     graphics  grDevices utils     datasets  methods   base
> >>>
> >>> other attached packages:
> >>> [1] spatstat_1.15-3 deldir_0.0-8    gpclib_1.4-3    mgcv_1.5-5
> >>>
> >>> loaded via a namespace (and not attached):
> >>> [1] grid_2.9.0      lattice_0.17-22 nlme_3.1-90     tools_2.9.0
> >>>
> >>> At 16:40 10/06/2009, Hengl, T. wrote:
> >>>
> >>>> Hi,
> >>>>
> >>>> I am having problems with loading the mgcv package, which is used by
> >>>> the spatstat package. I did not have similar problems with the
> >>>> latest version of the spatstat, so I imagine that the problem could
> >>>> lay with the mgcv package (new parameters).
> >>>>
> >>>>
> >>>>> library(spatstat)
> >>>>>
> >>>> Loading required package: mgcv
> >>>> Error in formatDL(nm, txt, indent = max(nchar(nm, "w")) + 3) :
> >>>>   incorrect values of 'indent' and 'width'
> >>>> Error : .onAttach failed in 'attachNamespace'
> >>>> Error: package 'mgcv' could not be loaded
> >>>>
> >>>> How could we fix this?
> >>>>
> >>>>
> >>>> thanks,
> >>>>
> >>>> T. Hengl
> >>>> http://home.medewerker.uva.nl/t.hengl/
> >>>>
> >>>>         [[alternative HTML version deleted]]
> >>>>
> >>>> _______________________________________________
> >>>> R-sig-Geo mailing list
> >>>> R-sig-Geo at stat.math.ethz.ch
> >>>> https://stat.ethz.ch/mailman/listinfo/r-sig-geo
> >>>>
> >>> ***************************************
> >>> Marcelino de la Cruz Rot
> >>> Depto. Biologia Vegetal
> >>> EUIT Agricola
> >>> Universidad Politecnica de Madrid
> >>> 28040-Madrid
> >>> SPAIN
> >>> ***************************************
> >>> 	[[alternative HTML version deleted]]
> >>>
> >>> _______________________________________________
> >>> R-sig-Geo mailing list
> >>> R-sig-Geo at stat.math.ethz.ch
> >>> https://stat.ethz.ch/mailman/listinfo/r-sig-geo
> >>>
> >>
> >> --
> >> Dylan Beaudette
> >> Soil Resource Laboratory
> >> http://casoilresource.lawr.ucdavis.edu/
> >> University of California at Davis
> >> 530.754.7341
> >>
> >
> > _______________________________________________
> > R-sig-Geo mailing list
> > R-sig-Geo at stat.math.ethz.ch
> > https://stat.ethz.ch/mailman/listinfo/r-sig-geo
> >
> 
> --
> Edzer Pebesma
> Institute for Geoinformatics (ifgi), University of Münster
> Weseler Straße 253, 48151 Münster, Germany. Phone: +49 251
> 8333081, Fax: +49 251 8339763 http://ifgi.uni-muenster.de/
> http://www.springer.com/978-0-387-78170-9 e.pebesma at wwu.de

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