* checking for file 'GLAD/DESCRIPTION' ... OK
* preparing 'GLAD':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* checking whether 'INDEX' is up-to-date ... OK
* installing the package to re-build vignettes
* Installing *source* package 'GLAD' ...
** libs
gcc -I/loc/biocbuild/1.8d/R/include -I/loc/biocbuild/1.8d/R/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c distance.c -o distance.o
distance.c: In function `R_correlation':
distance.c:175: warning: unused variable `dist'
g++ -I/loc/biocbuild/1.8d/R/include -I/loc/biocbuild/1.8d/R/include -I/usr/local/include -fpic -g -O2 -Wall -c glad.cpp -o glad.o
glad.cpp: In function `void detectOutliers(double*, int*, int*, int*, int*,
int*, double*, int*)':
glad.cpp:106: warning: comparison between signed and unsigned integer
expressions
gcc -I/loc/biocbuild/1.8d/R/include -I/loc/biocbuild/1.8d/R/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c glad-function.c -o glad-function.o
glad-function.c: In function `updateOutliers':
glad-function.c:118: warning: suggest parentheses around comparison in operand of &
glad-function.c: In function `updateOutliersMoveBkp':
glad-function.c:143: warning: suggest parentheses around comparison in operand of &
glad-function.c: In function `moveBkp':
glad-function.c:174: warning: suggest parentheses around comparison in operand of &
glad-function.c:174: warning: suggest parentheses around comparison in operand of &
glad-function.c:174: warning: suggest parentheses around comparison in operand of &
glad-function.c:185: warning: suggest parentheses around comparison in operand of &
glad-function.c:185: warning: suggest parentheses around comparison in operand of &
glad-function.c:185: warning: suggest parentheses around comparison in operand of &
glad-function.c:185: warning: suggest parentheses around comparison in operand of &
glad-function.c: In function `awsBkp':
glad-function.c:231: warning: suggest parentheses around comparison in operand of &
glad-function.c:231: warning: suggest parentheses around comparison in operand of &
glad-function.c:231: warning: suggest parentheses around comparison in operand of &
glad-function.c:259: warning: suggest parentheses around comparison in operand of &
glad-function.c:261: warning: suggest parentheses around comparison in operand of |
glad-function.c: In function `updateBkpRL':
glad-function.c:333: warning: suggest parentheses around comparison in operand of |
glad-function.c:367: warning: suggest parentheses around comparison in operand of &
glad-function.c:367: warning: suggest parentheses around comparison in operand of &
glad-function.c:377: warning: suggest parentheses around comparison in operand of &
glad-function.c: In function `updateGNL':
glad-function.c:543: warning: suggest parentheses around comparison in operand of |
glad-function.c:556: warning: suggest parentheses around comparison in operand of |
gcc -I/loc/biocbuild/1.8d/R/include -I/loc/biocbuild/1.8d/R/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c hclust.c -o hclust.o
hclust.c: In function `hclust':
hclust.c:56: warning: unused variable `tmp'
hclust.c:276: warning: control reaches end of non-void function
hclust.c:49: warning: `im' might be used uninitialized in this function
hclust.c:49: warning: `jm' might be used uninitialized in this function
hclust.c:49: warning: `jj' might be used uninitialized in this function
gcc -I/loc/biocbuild/1.8d/R/include -I/loc/biocbuild/1.8d/R/include -I/usr/local/include -fpic -g -O2 -std=gnu99 -Wall -c laws.c -o laws.o
g++ -shared -L/usr/local/lib -o GLAD.so distance.o glad.o glad-function.o hclust.o laws.o
** R
** data
** demo
** inst
** preparing package for lazy loading
** help
>>> Building/Updating help pages for package 'GLAD'
Formats: text html latex example
ChrNumeric text html latex example
ColorBar text html latex example
GLAD-internal text html latex
arrayCGH text html latex example
arrayPersp text html latex example
arrayPlot text html latex example
as.data.frame.profileCGH text html latex example
as.profileCGH text html latex example
bladder text html latex example
cytoband text html latex example
daglad text html latex example
glad text html latex example
hclust text html latex example
kernel text html latex
myPalette text html latex example
plotProfile text html latex example
profileCGH text html latex example
snijders text html latex example
tkdaglad text html latex example
veltman text html latex example
** building package indices ...
* DONE (GLAD)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source files
* checking for empty or unneeded directories
* building 'GLAD_1.6.0.tar.gz'