[R] errors when installing packages (ubuntu)

[Reinhard Furrer]

All,
as a temporary fix (until the new version is on CRAN), one can install 
spam version
   spam_0.20-0
available on
   http://user.math.uzh.ch/furrer/software/spam/

During the installation, a couple warnings appear, but on can ignore 
those...

I'll post a new version soon.

Best,
Reinhard




Uwe Ligges wrote:
> 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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