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Command output

* 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/home/biocbuild/R-2.3.0/include -I/home/biocbuild/R-2.3.0/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/home/biocbuild/R-2.3.0/include -I/home/biocbuild/R-2.3.0/include  -I/usr/local/include   -fpic  -g -O2 -c glad.cpp -o glad.o
gcc -I/home/biocbuild/R-2.3.0/include -I/home/biocbuild/R-2.3.0/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/home/biocbuild/R-2.3.0/include -I/home/biocbuild/R-2.3.0/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:49: warning: 'jm' may be used uninitialized in this function
hclust.c:49: warning: 'jj' may be used uninitialized in this function
hclust.c:49: warning: 'im' may be used uninitialized in this function
hclust.c:276: warning: control reaches end of non-void function
gcc -I/home/biocbuild/R-2.3.0/include -I/home/biocbuild/R-2.3.0/include  -I/usr/local/include   -fpic  -g -O2 -std=gnu99 -Wall -c laws.c -o laws.o
g++ -shared -L/usr/local/lib64 -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'