[BioC] R installation error----please help

Zhang, Jacob Jacob.Zhang at vai.org
Mon Apr 24 21:26:44 CEST 2006


Hi, Bioconductor:

I was trying to install some new packages in R, but for no obvious
reason, it gave me the following error info. Any suggestions what was
going on?

Thanks, 

Jacob


The error info was: 


################################################################### 
 install.packages("affyio_0.99.3.tar.gz", repos=NULL)
* Installing *source* package 'affyio' ...
creating cache ./config.cache
checking how to run the C preprocessor... cc -E
checking for main in -lz... yes
checking for zlib.h... yes
checking if zlib version >= 1.1.3... yes
updating cache ./config.cache
creating ./config.status
creating src/Makevars
** libs
gcc -I/usr/home/jacob/R-2.2.1/include -DHAVE_ZLIB=1
-I/usr/local/include   -fPIC  -g -O2 -c read_abatch.c -o read_abatch.o
gcc -I/usr/home/jacob/R-2.2.1/include -DHAVE_ZLIB=1
-I/usr/local/include   -fPIC  -g -O2 -c read_bpmap.c -o read_bpmap.o
gcc -I/usr/home/jacob/R-2.2.1/include -DHAVE_ZLIB=1
-I/usr/local/include   -fPIC  -g -O2 -c read_cdffile2.c -o
read_cdffile2.o
gcc -I/usr/home/jacob/R-2.2.1/include -DHAVE_ZLIB=1
-I/usr/local/include   -fPIC  -g -O2 -c read_cdf_xda.c -o read_cdf_xda.o
gcc -shared -L/usr/local/lib64 -o affyio.so read_abatch.o read_bpmap.o
read_cdffile2.o read_cdf_xda.o -lz   -L/usr/home/jacob/R-2.2.1/lib -lR
/usr/lib64/gcc-lib/x86_64-suse-linux/3.3.3/../../../../x86_64-suse-linux
/bin/ld: cannot find -lR
collect2: ld returned 1 exit status
make: *** [affyio.so] Error 1
ERROR: compilation failed for package 'affyio'
** Removing '/usr/home/jacob/R-2.2.1/library/affyio'
Warning message:
installation of package 'affyio_0.99.3.tar.gz' had non-zero exit status
in: install.packages("affyio_0.99.3.tar.gz", repos = NULL)
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