BioC 2.1: CHECK report for preprocessCore on lamb1

* checking for working latex ... OK
* using log directory '/home/biocbuild/bbs-2.1-bioc/meat/preprocessCore.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-06-03 r41797)
* checking for file 'preprocessCore/DESCRIPTION' ... OK
* this is package 'preprocessCore' version '0.99.7'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'preprocessCore' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking for CRLF line endings in C/C++/Fortran sources/headers ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating preprocessCore-Ex.R ... OK
* checking examples ... OK
* creating preprocessCore-manual.tex ... OK
* checking preprocessCore-manual.tex ... OK

* Installing *source* package 'preprocessCore' ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c avg_log.c -o avg_log.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c biweight.c -o biweight.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c init_package.c -o init_package.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c lm.c -o lm.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c log_avg.c -o log_avg.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c matrix_functions.c -o matrix_functions.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c medianpolish.c -o medianpolish.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c psi_fns.c -o psi_fns.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c qnorm.c -o qnorm.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c rlm_anova.c -o rlm_anova.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c rlm.c -o rlm.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c rlm_se.c -o rlm_se.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c rma_common.c -o rma_common.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o preprocessCore.so avg_log.o biweight.o init_package.o lm.o log_avg.o matrix_functions.o medianpolish.o psi_fns.o qnorm.o rlm_anova.o rlm.o rlm_se.o rma_common.o -lgfortran -lm -L/home/biocbuild/bbs-2.1-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-2.1-bioc/R/lib -lRblas  -L/home/biocbuild/bbs-2.1-bioc/R/lib -lR
** R
** inst
** preparing package for lazy loading
** help
 >>> Building/Updating help pages for package 'preprocessCore'
     Formats: text html latex example 
  normalize.quantiles               text    html    latex
  normalize.quantiles.in.blocks     text    html    latex   example
  normalize.quantiles.robust        text    html    latex
  normalize.quantiles.target        text    html    latex
** building package indices ...
* DONE (preprocessCore)

Package 173/238	Hostname	OS	Arch	BUILD	CHECK	BUILD BIN
preprocessCore 0.99.7 Benjamin Milo Bolstad Last Changed Date: 2007-06-05 17:06:01 -0700 Last Changed Rev: 25205	lamb1	Linux (SUSE 10.1)	x86_64	OK	[ OK ]
	wellington	Linux (SUSE 9.2)	i686	OK	OK
	churchill	Solaris 2.9	sparc	OK	OK
	lemming	Windows Server 2003 (32-bit)	x64	OK	OK	skipped

preprocessCore

0.99.7

Command output