[BioC] Installation of e1071 failed

[Robert Gentleman]

Hi,
   It looks like your gcc and g++ are not configured to play well  
together. You will do better to ask about R packages (this one is from  
CRAN) on the r-help list - it is more widely read.

  Googling on "architecture of input file", leads one to some similar  
cases - ld is likely to be the culprit  - there are many suggestions  
there - I leave it to you to figure out which seem to apply to your  
situation.

  I can report that it works fine on a similar system using R 2.1.0 (the  
current release), so I suspect it is your system that needs some fine  
tuning.

best wishes
    Robert


On May 2, 2005, at 5:46 AM, Malick.PAYE at eu.biomerieux.com wrote:

>
>
> Hello all,
>
> I have troubles installing e1071 package, here is the error message I  
> get
> while trying to install this package :
>
> -bash-3.00$ R CMD INSTALL e1071_1.5-8.tar.gz
>
> * Installing *source* package 'e1071' ...
> checking for C++ compiler default output... a.out
> checking whether the C++ compiler works... yes
> checking whether we are cross compiling... no
> checking for suffix of executables...
> checking for suffix of object files... o
> checking whether we are using the GNU C++ compiler... yes
> checking whether g++ accepts -g... yes
> ** libs
> gcc -mcpu=powerpc64 -m64 -I/usr/local/lib/R/include   
> -I/usr/local/include
> -fPI
> C  -g -O2 -c cmeans.c -o cmeans.o
> gcc -mcpu=powerpc64 -m64 -I/usr/local/lib/R/include   
> -I/usr/local/include
> -fPI
> C  -g -O2 -c cshell.c -o cshell.o
> gcc -mcpu=powerpc64 -m64 -I/usr/local/lib/R/include   
> -I/usr/local/include
> -fPI
> C  -g -O2 -c floyd.c -o floyd.o
> gcc -mcpu=powerpc64 -m64 -I/usr/local/lib/R/include   
> -I/usr/local/include
> -fPI
> C  -g -O2 -c Rsvm.c -o Rsvm.o
> g++ -I/usr/local/lib/R/include  -I/usr/local/include   -fPIC  -m64 -c
> svm.cpp -o
>  svm.o
> g++ -shared -L/usr/local/lib -o e1071.so cmeans.o cshell.o floyd.o  
> Rsvm.o
> svm.o
>
> /usr/bin/ld: warning: powerpc:common64 architecture of input file
> `cmeans.o' is
> incompatible with powerpc:common output
> /usr/bin/ld: warning: powerpc:common64 architecture of input file
> `cshell.o' is
> incompatible with powerpc:common output
> /usr/bin/ld: warning: powerpc:common64 architecture of input file
> `floyd.o' is i
> ncompatible with powerpc:common output
> /usr/bin/ld: warning: powerpc:common64 architecture of input file  
> `Rsvm.o'
> is in
> compatible with powerpc:common output
> /usr/bin/ld: warning: powerpc:common64 architecture of input file  
> `svm.o'
> is inc
> ompatible with powerpc:common output
> cmeans.o(.text+0x2a): In function `cmeans_setup':
> /tmp/R.INSTALL.21279/e1071/src/cmeans.c:20: relocation truncated to  
> fit:
> R_PPC64
> _TOC16_DS .toc
> ?.
> ?.
> ?
> collect2: ld returned 1 exit status
> make: *** [e1071.so] Error 1
>
> Does anybody encounter this kind of problem ?
>
>
> Any help will be greatly appreciate,
>
> Malick,
>
> PS:
>> version
>
> platform powerpc64-unknown-linux-gnu
> arch     powerpc64
> os       linux-gnu
> system   powerpc64, linux-gnu
> status
> major    2
> minor    0.1
> year     2004
> month    11
> day      15
> language R
>
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+----------------------------------------------------------------------- 
----------------+
| Robert Gentleman              phone: (206) 667-7700                    
          |
| Head, Program in Computational Biology   fax:  (206) 667-1319   |
| Division of Public Health Sciences       office: M2-B865               
       |
| Fred Hutchinson Cancer Research Center                                 
          |
| email: rgentlem at fhcrc.org                                              
                          |
+----------------------------------------------------------------------- 
----------------+


+----------------------------------------------------------------------- 
----------------+
| Robert Gentleman              phone: (206) 667-7700                    
          |
| Head, Program in Computational Biology   fax:  (206) 667-1319   |
| Division of Public Health Sciences       office: M2-B865               
       |
| Fred Hutchinson Cancer Research Center                                 
          |
| email: rgentlem at fhcrc.org                                              
                          |
+----------------------------------------------------------------------- 
----------------+