Package: fbat

Version: 1.1.2

Command: /home/biocbuild/bbs-2.1-bioc/R/bin/R CMD build fbat

RetCode: 0

Time: 7.5 seconds

Status: OK

PackageFile: fbat_1.1.2.tar.gz

* checking for file 'fbat/DESCRIPTION' ... OK
* preparing 'fbat':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
* Installing *source* package 'fbat' ...
** 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 FBAT.c -o FBAT.o
FBAT.c: In function 'countLines':
FBAT.c:2142: warning: 'tmpnc2' may be used uninitialized in this function
FBAT.c: In function 'oneNuclearFamily':
FBAT.c:1859: warning: 'sex2' may be used uninitialized in this function
FBAT.c:1859: warning: 'sex1' may be used uninitialized in this function
FBAT.c: In function 'decomposePed':
FBAT.c:1986: warning: 'i' may be used uninitialized in this function
FBAT.c: In function 'checkoneNuclearFamily':
FBAT.c:1667: warning: 'sex2' may be used uninitialized in this function
FBAT.c:1667: warning: 'sex1' may be used uninitialized in this function
FBAT.c: In function 'checkdecomposePed':
FBAT.c:1590: warning: 'i' may be used uninitialized in this function
FBAT.c: In function 'checkCompatible':
FBAT.c:1404: warning: 'start2' may be used uninitialized in this function
FBAT.c: In function 'fbat':
FBAT.c:43: warning: 'start2' may be used uninitialized in this function
gfortran   -fpic  -g -O2 -Wall -c missGFreq.f -o missGFreq.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 register.c -o register.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o fbat.so FBAT.o missGFreq.o register.o  -lgfortran -lm -L/home/biocbuild/bbs-2.1-bioc/R/lib -lR
** R
** data
** inst
WARNING: true value of 'SaveImage' is deprecated in favour of 'LazyLoad: true'
** save image
Loading required package: MASS
Loading required package: GeneticsBase
Loading required package: combinat

Attaching package: 'combinat'


	The following object(s) are masked from package:utils :

	 combn 

Loading required package: xtable
Loading required package: mvtnorm
** help
Note: unmatched right brace in 'getFounders' on or after line 6
 >>> Building/Updating help pages for package 'fbat'
     Formats: text html latex example 
  checkMarkers                      text    html    latex   example
  checkMendelian                    text    html    latex   example
  fbat                              text    html    latex   example
  getFounders                       text    html    latex   example
  missGFreq                         text    html    latex   example
  pedAFreq                          text    html    latex   example
  pedFlagHomo                       text    html    latex   example
  pedGFreq                          text    html    latex   example
  pedHardyWeinberg                  text    html    latex   example
  readHapMap                        text    html    latex   example
  readLink                          text    html    latex   example
  readPed                           text    html    latex   example
  sampleInfoCEU                     text    html    latex   example
  sampleInfoCHB                     text    html    latex   example
  sampleInfoJPT                     text    html    latex   example
  sampleInfoYRI                     text    html    latex   example
  summaryPvalue                     text    html    latex   example
  viewFlagHomo                      text    html    latex   example
  viewHW                            text    html    latex   example
  viewstat                          text    html    latex   example
** building package indices ...
* DONE (fbat)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source files
* checking for empty or unneeded directories
* building 'fbat_1.1.2.tar.gz'