[R] errors when installing packages (ubuntu)

[Uwe Ligges]

Looks like spam depends on R-2.10.x which the package maintainer (CCing) 
has not declared in the DESCRIPTION file.
So either install R-2.10.1 and try again or use an older spam version 
from the CRAN archives for your old version of R.

To Reinhard Furrer: can you please upload a new version with increased 
version number to CRAN that declares the dependency. Thank you.

Best wishes,
Uwe Ligges


On 09.01.2010 14:27, romunov wrote:
> Hi List,
>
> I'm having problems installing certain packages. When I try to install
> fields, I get the output below. I have highlighted the what I perceive as
> the first error (spam seems to be a dependency of fields). Can I assume this
> is causing dependency problems for fields, which fails to install at the
> end, or is there a deeper problem? I run Ubuntu Karmic Koala on R 2.9.2.
>
> 2>  install.packages("fields")
> Warning in install.packages("fields") :
>    argument 'lib' is missing: using
> '/home/romunov/R/i486-pc-linux-gnu-library/2.9'
> --- Please select a CRAN mirror for use in this session ---
> Loading Tcl/Tk interface ... done
> also installing the dependency ‘spam’
>
> trying URL 'http://cran.at.r-project.org/src/contrib/spam_0.20-2.tar.gz'
> Content type 'application/x-gzip' length 470013 bytes (458 Kb)
> opened URL
> ==================================================
> downloaded 458 Kb
>
> trying URL 'http://cran.at.r-project.org/src/contrib/fields_6.01.tar.gz'
> Content type 'application/x-gzip' length 3670039 bytes (3.5 Mb)
> opened URL
> ==================================================
> downloaded 3.5 Mb
>
> * Installing *source* package ‘spam’ ...
> ** libs
> gfortran   -fpic  -g -O2 -c bckslvmodified.f -o bckslvmodified.o
> gfortran   -fpic  -g -O2 -c cholmodified.f -o cholmodified.o
> gfortran   -fpic  -g -O2 -c dist.f -o dist.o
> gfortran   -fpic  -g -O2 -c fromsparsekit.f -o fromsparsekit.o
> gfortran   -fpic  -g -O2 -c kronecker.f -o kronecker.o
> gfortran   -fpic  -g -O2 -c spamown.f -o spamown.o
> gfortran   -fpic  -g -O2 -c xybind.f -o xybind.o
> gcc -std=gnu99 -shared -o spam.so bckslvmodified.o cholmodified.o dist.o
> fromsparsekit.o kronecker.o spamown.o xybind.o -lgfortran -lm
> -L/usr/lib/R/lib -lR
> ** R
> ** data
> **  moving datasets to lazyload DB
> ** demo
> ** inst
> ** preparing package for lazy loading
> Creating a new generic function for "print" in "spam"
> Creating a new generic function for "summary" in "spam"
> Creating a new generic function for "diag" in "spam"
> Creating a new generic function for "diag<-" in "spam"
> Creating a new generic function for "t" in "spam"
> Error in setOldClass(c("dist", "numeric")) :
>    inconsistent old-style class information for "numeric"; the class is
> defined but does not extend "oldClass"
> Error : unable to load R code in package 'spam'
> ERROR: lazy loading failed for package ‘spam’
> * Removing ‘/home/romunov/R/i486-pc-linux-gnu-library/2.9/spam’
> * Installing *source* package ‘fields’ ...
> ** libs
> gfortran   -fpic  -g -O2 -c css.f -o css.o
> gfortran   -fpic  -g -O2 -c csstr.f -o csstr.o
> gfortran   -fpic  -g -O2 -c cvrf.f -o cvrf.o
> gfortran   -fpic  -g -O2 -c dchold.f -o dchold.o
> gfortran   -fpic  -g -O2 -c dcopy.f -o dcopy.o
> gfortran   -fpic  -g -O2 -c ddfind.f -o ddfind.o
> gfortran   -fpic  -g -O2 -c ddot.f -o ddot.o
> gfortran   -fpic  -g -O2 -c derrb.f -o derrb.o
> gfortran   -fpic  -g -O2 -c dlv.f -o dlv.o
> gfortran   -fpic  -g -O2 -c dmaket.f -o dmaket.o
> gfortran   -fpic  -g -O2 -c drdfun.f -o drdfun.o
> gfortran   -fpic  -g -O2 -c dsetup.f -o dsetup.o
> gfortran   -fpic  -g -O2 -c evlpoly.f -o evlpoly.o
> gfortran   -fpic  -g -O2 -c evlpoly2.f -o evlpoly2.o
> gfortran   -fpic  -g -O2 -c expbs.f -o expbs.o
> gfortran   -fpic  -g -O2 -c expfn.f -o expfn.o
> gfortran   -fpic  -g -O2 -c gaspbs.f -o gaspbs.o
> gfortran   -fpic  -g -O2 -c gaspfn.f -o gaspfn.o
> gfortran   -fpic  -g -O2 -c gcvcss.f -o gcvcss.o
> gfortran   -fpic  -g -O2 -c gcvfc.f -o gcvfc.o
> gfortran   -fpic  -g -O2 -c hsort.f -o hsort.o
> gfortran   -fpic  -g -O2 -c ifind.f -o ifind.o
> gfortran   -fpic  -g -O2 -c igpoly.f -o igpoly.o
> gfortran   -fpic  -g -O2 -c inpoly.f -o inpoly.o
> gfortran   -fpic  -g -O2 -c lscv.f -o lscv.o
> gfortran   -fpic  -g -O2 -c m2deb.f -o m2deb.o
> gfortran   -fpic  -g -O2 -c mkpoly.f -o mkpoly.o
> gfortran   -fpic  -g -O2 -c mltdrb.f -o mltdrb.o
> gfortran   -fpic  -g -O2 -c mltdtd.f -o mltdtd.o
> gfortran   -fpic  -g -O2 -c msort.f -o msort.o
> gfortran   -fpic  -g -O2 -c multeb.f -o multeb.o
> gfortran   -fpic  -g -O2 -c multgb.f -o multgb.o
> gfortran   -fpic  -g -O2 -c multrb.f -o multrb.o
> gfortran   -fpic  -g -O2 -c radbas.f -o radbas.o
> gfortran   -fpic  -g -O2 -c radfn2.f -o radfn2.o
> gfortran   -fpic  -g -O2 -c radfun.f -o radfun.o
> gfortran   -fpic  -g -O2 -c rcss.f -o rcss.o
> gfortran   -fpic  -g -O2 -c rcssr.f -o rcssr.o
> gfortran   -fpic  -g -O2 -c rcsswt.f -o rcsswt.o
> gfortran   -fpic  -g -O2 -c sortm.f -o sortm.o
> gcc -std=gnu99 -shared -o fields.so css.o csstr.o cvrf.o dchold.o dcopy.o
> ddfind.o ddot.o derrb.o dlv.o dmaket.o drdfun.o dsetup.o evlpoly.o
> evlpoly2.o expbs.o expfn.o gaspbs.o gaspfn.o gcvcss.o gcvfc.o hsort.o
> ifind.o igpoly.o inpoly.o lscv.o m2deb.o mkpoly.o mltdrb.o mltdtd.o msort.o
> multeb.o multgb.o multrb.o radbas.o radfn2.o radfun.o rcss.o rcssr.o
> rcsswt.o sortm.o -lgfortran -lm -L/usr/lib/R/lib -lR
> ** R
> ** data
> ** preparing package for lazy loading
> Warning in library(pkg, character.only = TRUE, logical.return = TRUE,
> lib.loc = lib.loc) :
>    there is no package called 'spam'
> Error : package 'spam' could not be loaded
> ERROR: lazy loading failed for package ‘fields’
> * Removing ‘/home/romunov/R/i486-pc-linux-gnu-library/2.9/fields’
>
> The downloaded packages are in
>      ‘/tmp/RtmpOUIANP/downloaded_packages’
> Warning messages:
> 1: In install.packages("fields") :
>    installation of package 'spam' had non-zero exit status
> 2: In install.packages("fields") :
>    installation of package 'fields' had non-zero exit status
>
> 	[[alternative HTML version deleted]]
>
>
>
>
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