* checking for file 'MANOR/DESCRIPTION' ... OK
* preparing 'MANOR':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
* Installing *source* package 'MANOR' ...
** 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 exememo.c -o exememo.o
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 lib_io.c -o lib_io.o
lib_io.c: In function `CountLinesColumns':
lib_io.c:354: warning: `mincols' might be used uninitialized in this function
lib_io.c:354: warning: `maxcols' 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 nem_alg.c -o nem_alg.o
nem_alg.c: In function `ClassifyByNemOneBeta':
nem_alg.c:1631: warning: `bestbeta' 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 nem_hlp.c -o nem_hlp.o
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 nem_mod.c -o nem_mod.o
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 nem_nei.c -o nem_nei.o
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 nem_rnd.c -o nem_rnd.o
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 nem_ver.c -o nem_ver.o
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 Rnem_arg.c -o Rnem_arg.o
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 Rnem_exe.c -o Rnem_exe.o
Rnem_exe.c: In function `nem':
Rnem_exe.c:168: warning: `tmpV' might be used uninitialized in this function
gcc -shared -L/usr/local/lib64 -o MANOR.so exememo.o lib_io.o nem_alg.o nem_hlp.o nem_mod.o nem_nei.o nem_rnd.o nem_ver.o Rnem_arg.o Rnem_exe.o
** R
** data
** inst
** preparing package for lazy loading
Loading required package: GLAD
[1] "Have fun with GLAD"
** help
>>> Building/Updating help pages for package 'MANOR'
Formats: text html latex example
MANOR-internal text html latex
arrayTrend text html latex example
detectSB text html latex example
flag text html latex example
flag.arrayCGH text html latex example
flag.summary text html latex example
flags text html latex example
genome.plot text html latex example
html.report text html latex example
import text html latex example
nem text html latex example
norm.arrayCGH text html latex example
qscore text html latex example
qscore.arrayCGH text html latex example
qscore.summary text html latex example
qscores text html latex example
report.plot text html latex example
sort.arrayCGH text html latex example
spatial text html latex example
** building package indices ...
* DONE (MANOR)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source files
* checking for empty or unneeded directories
* building 'MANOR_1.4.0.tar.gz'