R help - Jun 2003 - Problem with installation under R 1.7.1 and unzip

Dear all,
 
i was working under R 1.6.2 but i wanted to install bioconductor under WinXP,
and because R 1.7.1 contains the TclTk package and automatic installation of
bioconductor packages, so i install it.
 
Everything is fine except this message which appear after the installation of
packages.
 
"> local({a<- CRAN.packages(CRAN=getOption("BIOC"))
+ install.packages(select.list(a[,1],,TRUE), .libPaths()[1], available=a,
CRAN=getOption("BIOC"))})
trying URL `http://www.bioconductor.org/bin/windows/contrib/1.7/PACKAGES'
Content type `text/plain' length 11255 bytes
opened URL
downloaded 10Kb
trying URL
`http://www.bioconductor.org/bin/windows/contrib/1.7/Biobase_1.3.22.zip'
Content type `application/zip' length 444272 bytes
opened URL
downloaded 433Kb
Error in int.unzip(zipname, NULL, dest) : destination does not exist"
 
the function int.unzip doesn't exist in R and i don't know which
destination must be specified to unzip packages and install it. In fact i am
doing this manually now and it works using "Load package" but i
won't do this always because i have the same problem in updating these
packages. My destination directory is Program Files\\R\\rw1071\\Rwork.
Could anyone tell me what to do and how to resolve this problem?
 
Thank you a lot 
Ramzi

 




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On Mon, 23 Jun 2003, Ramzi Feghali wrote:
> Dear all,
>  
> i was working under R 1.6.2 but i wanted to install bioconductor under
WinXP, and because R 1.7.1 contains the TclTk package and automatic installation
of bioconductor packages, so i install it.
>  
> Everything is fine except this message which appear after the installation
of packages.
>  
> "> local({a<- CRAN.packages(CRAN=getOption("BIOC"))
> + install.packages(select.list(a[,1],,TRUE), .libPaths()[1], available=a,
CRAN=getOption("BIOC"))})
> trying URL
`http://www.bioconductor.org/bin/windows/contrib/1.7/PACKAGES'
> Content type `text/plain' length 11255 bytes
> opened URL
> downloaded 10Kb
> trying URL
`http://www.bioconductor.org/bin/windows/contrib/1.7/Biobase_1.3.22.zip'
> Content type `application/zip' length 444272 bytes
> opened URL
> downloaded 433Kb
> Error in int.unzip(zipname, NULL, dest) : destination does not exist"
>  the function int.unzip doesn't exist in R 
Yes, it does.  As it name suggests, it is an internal function, called via 
.Internal, in this case as part of zip.unpack.
> and i don't know which
> destination must be specified to unzip packages and install it. In fact
> i am doing this manually now and it works using "Load package"
but i
> won't do this always because i have the same problem in updating these
> packages. 
> My destination directory is Program Files\\R\\rw1071\\Rwork.
> Could anyone tell me what to do and how to resolve this problem?
How do you know that? (It almost certainly is not: try doing a 
traceback() to find out.)


My suggestion is that you re-install R in a directory without any spaces 
in the path, as that is likely to be the problem.  Alternatively, you 
could install unzip.exe and set options("unzip").

-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595

Thanks a lot professor,
but no in fact it is like you've said c:\Program Files\R\rw1071\Rwork is my
"Working directory = C:\Program Files\R\rw1071\Rwork", i am in fact
using the functions you've gave me to know what is happening with me because
with R 1.6.2 i could install my packages with no problem like that, and i
didn't change anything after uninstalling R 1.6.2 and installing R 1.7.1
(except of course in the propreties of R 1.7.2 Shortcut)
 
>zip.unpack("sma",dirperm)
[1] 1
attr(,"extracted")
character(0)
Warning message: 
error 1 in extracting from zip file  
>options("unzip")
$unzip
[1] "internal"
 
and this is what i got after the error message of packages installation
 
> traceback()
9: zip.unpack(pkg, tmpDir)
8: unpackPkg(foundpkgs[okp, 2], pkgnames[okp], lib, installWithVers)
7: install.packages(select.list(a[, 1], , TRUE), .libPaths()[1], 
       available = a, CRAN = getOption("BIOC"))
6: eval(expr, envir, enclos)
5: eval(quote({
       a <- CRAN.packages(CRAN = getOption("BIOC"))
       install.packages(select.list(a[, 1], , TRUE), .libPaths()[1], 
           available = a, CRAN = getOption("BIOC"))
   }), new.env())
4: eval(expr, envir, enclos)
3: eval(expr, p)
2: eval.parent(substitute(eval(quote(expr), envir)))
1: local({
       a <- CRAN.packages(CRAN = getOption("BIOC"))
       install.packages(select.list(a[, 1], , TRUE), .libPaths()[1], 
           available = a, CRAN = getOption("BIOC"))
   })
 
thanks again
Ramzi



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