* checking for file 'SAGx/DESCRIPTION' ... OK
* preparing 'SAGx':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* checking whether 'INDEX' is up-to-date ... NO
* use '--force' to overwrite the existing 'INDEX'
* installing the package to re-build vignettes
* Installing *source* package 'SAGx' ...
** libs
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c minigsea.c -o minigsea.o
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c newboot.c -o newboot.o
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c samrocNboot.c -o samrocNboot.o
gcc -shared -L/usr/local/lib64 -o SAGx.so minigsea.o newboot.o samrocNboot.o
** R
** inst
** preparing package for lazy loading
Loading required package: multtest
Loading required package: Biobase
Loading required package: tools
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'openVignette()' or start with 'help(Biobase)'. For details
on reading vignettes, see the openVignette help page.
Loading required package: survival
Loading required package: splines
Loading required package: sma
** help
>>> Building/Updating help pages for package 'SAGx'
Formats: text html latex example
Fstat text html latex example
GSEA.mean.t text html latex
JT.test text html latex example
R2BASE text html latex
R2mim text html latex
Xprep text html latex
Xprep.resid text html latex
clin2mim text html latex
cluster.q text html latex
estimatep0 text html latex
fetchSignal text html latex example
firstpass text html latex example
fom text html latex
fp.fn text html latex
gap text html latex example
list.experiments text html latex example
list.intersection.p text html latex
mat2TeX text html latex
myclus text html latex example
normalise text html latex
one.probeset.per.gene text html latex
outlier text html latex example
p0.mom text html latex
pava.fdr text html latex
pava text html latex example
rank.genes text html latex
rank.trend text html latex example
rsd.test text html latex
samroc.result-class text html latex
samrocn text html latex
samrocnboot text html latex example
union.of.pways text html latex example
** building package indices ...
* DONE (SAGx)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source files
* checking for empty or unneeded directories
* building 'SAGx_1.7.1.tar.gz'