[R] Cannot load vegan and vcd, "object vI not found"

[Camilo Bernardo Garcia Ramirez]

Dear All: Problem solved. Package MASS was not properly installed. Thanks a
lot.
Camilo B. Garcia

El mié., 21 ago. 2019 a las 12:26, Sarah Goslee (<sarah.goslee using gmail.com>)
escribió:

> Hi,
>
> You misunderstood the suggestion, which was to run update.packages()
> to update all packages, not just vegan (which doesn't need updated
> because you just reinstalled it).
> To make your own life easier, I'd run it as:
>
> update.packages(ask=FALSE, checkBuilt = TRUE)
>
> You could also try reinstalling the packages that vegan requires,
> which seems to be where the error actually is. (lattice, perhaps, but
> I'd reinstall
>
> Sarah
>
> On Tue, Aug 20, 2019 at 6:27 PM Camilo Bernardo Garcia Ramirez
> <cbgarciar using unal.edu.co> wrote:
> >
> > Hi again: First at all, thanks for your answer. My problem is still
> there.
> > Here the session. I did remove and (re)install vegan and then called for
> > update but no effect in the error. I included the sessionInfo() at the
> end.
> > Camilo
> >
> > > remove.packages("vegan")
> > Removing package from ‘C:/Users/Camilo/Documents/R/win-library/3.6’
> > (as ‘lib’ is unspecified)
> > > install.packages("vegan", dependencies=TRUE)
> > Installing package into ‘C:/Users/Camilo/Documents/R/win-library/3.6’
> > (as ‘lib’ is unspecified)
> > --- Please select a CRAN mirror for use in this session ---
> > probando la URL '
> > https://cran.wu.ac.at/bin/windows/contrib/3.6/vegan_2.5-5.zip'
> > Content type 'application/zip' length 3862370 bytes (3.7 MB)
> > downloaded 3.7 MB
> >
> > package ‘vegan’ successfully unpacked and MD5 sums checked
> >
> > The downloaded binary packages are in
> >         C:\Users\Camilo\AppData\Local\Temp\Rtmpu0yOZa\downloaded_packages
> > > update.packages("vegan")
> > > library(vegan)
> > Loading required package: permute
> > Loading required package: lattice
> > Error: package or namespace load failed for ‘vegan’ in loadNamespace(j <-
> > i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
> >  objeto 'vI' no encontrado
> >
> > > sessionInfo()
> > R version 3.6.1 (2019-07-05)
> > Platform: x86_64-w64-mingw32/x64 (64-bit)
> > Running under: Windows 10 x64 (build 17134)
> >
> > Matrix products: default
> >
> > locale:
> > [1] LC_COLLATE=Spanish_Spain.1252  LC_CTYPE=Spanish_Spain.1252
> > [3] LC_MONETARY=Spanish_Spain.1252 LC_NUMERIC=C
> > [5] LC_TIME=Spanish_Spain.1252
> >
> > attached base packages:
> > [1] stats     graphics  grDevices utils     datasets  methods   base
> >
> > other attached packages:
> > [1] lattice_0.20-38 permute_0.9-5
> >
> > loaded via a namespace (and not attached):
> > [1] compiler_3.6.1 parallel_3.6.1 tools_3.6.1    grid_3.6.1
> > >
> >
> > El mar., 20 ago. 2019 a las 5:31, Martin Maechler (<
> > maechler using stat.math.ethz.ch>) escribió:
> >
> > > >>>>> Jeff Newmiller
> > > >>>>>     on Mon, 19 Aug 2019 17:38:19 -0700 writes:
> > >
> > >     > Try closing all instances of R except for one and then run the
> > > update.packages() function. If that doesn't work then post the output
> of
> > > sessionInfo().
> > >
> > > I also strongly suspect that some of the packages concerned were
> > > not correctly installed.
> > >
> > >     > On August 19, 2019 5:11:11 AM PDT, Camilo Bernardo Garcia
> Ramirez <
> > > cbgarciar using unal.edu.co> wrote:
> > >     >> Hi: Could you help me with the following issue?:
> > >     >>
> > >     >> I downloaded the packages vegan and vcd with R3.6.1. When I try
> to
> > > load
> > >     >> them I got this error messages:
> > >     >>
> > >     >> > library(vegan)
> > >     >> Loading required package: permute
> > >     >> Loading required package: lattice
> > >     >> Error: package or namespace load failed for ‘vegan’ in
> > > loadNamespace(j
> > >     >> <-
> > >     >> i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
> > >     >> objeto 'vI' no encontrado (translation: object vI not found -
> my R
> > > is
> > >     >> in
> > >     >> Spanish)
> > >
> > > The error message above comes from base R's function
> > > loadNamespace()  [which calls itself recursively, when importing
> > > from other packages].
> > >
> > > I think the error message is not really useful, and indeed I think
> > > should *not* happen at this time:  'vI' is not defined here,
> > > because earlier the 'pkgInfo' result was not really valid.
> > >
> > > So I think you may have touched on a "buglet" in R in the sense
> > > that for such semi-validly / invalidly installed packages, you
> > > should get a better error message.
> > >
> > > Martin Maechler
> > > ETH Zurich  and  R Core team.
> > >
> > >
> > >     >>> library(vcd)
> > >     >> Loading required package: grid
> > >     >> Error: package or namespace load failed for ‘vcd’ in
> > > loadNamespace(j <-
> > >     >> i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
> > >     >> objeto 'vI' no encontrado (translation: object vI not found -
> my R
> > > is
> > >     >> in
> > >     >> Spanish)
> > >     >>
> > >     >> Sofar no one knows what that means. I am not an R expert! Could
> you
> > >     >> help
> > >     >> me?.
> > >     >> Regards,
> > >     >> Camilo B. Garcia
> > >
> > >     > --
>


-- 
Camilo B. García, Dr. rer. nat
Profesor Asociado, Departamento de Biología
Universidad Nacional de Colombia - Sede Bogotá

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