Package: affy

Version: 1.15.3

Command: /home/biocbuild/bbs-2.1-bioc/R/bin/R CMD build affy

RetCode: 1

Time: 1.5 seconds

Status: ERROR

PackageFile: None

* checking for file 'affy/DESCRIPTION' ... OK
* preparing 'affy':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running cleanup
* installing the package to re-build vignettes
* Installing *source* package 'affy' ...
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 -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1  -I/usr/local/include    -fpic  -g -O2 -Wall -c chipbackground.c -o chipbackground.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1  -I/usr/local/include    -fpic  -g -O2 -Wall -c getall_locations.c -o getall_locations.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1  -I/usr/local/include    -fpic  -g -O2 -Wall -c mas5calls.c -o mas5calls.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1  -I/usr/local/include    -fpic  -g -O2 -Wall -c rma2.c -o rma2.o
rma2.c:116:48: error: preprocessCore_normalization_stubs.c: No such file or directory
rma2.c: In function 'get_col_median':
rma2.c:188: warning: unused variable 'i'
rma2.c: In function 'rma_c_call':
rma2.c:498: warning: implicit declaration of function 'qnorm_c'
make: *** [rma2.o] Error 1
chmod: cannot access `/tmp/Rinst3030242666/affy/libs/*': No such file or directory
ERROR: compilation failed for package 'affy'
** Removing '/tmp/Rinst3030242666/affy'
 ERROR
Installation failed.
Removing '/tmp/Rinst3030242666'