Package: fbat

Version: 1.1.1

Command: /loc/biocbuild/bbs-2.1-bioc/R/bin/R CMD check fbat_1.1.1.tar.gz

RetCode: 0

Time: 101.3 seconds

Status: OK

CheckDir: fbat.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory '/extra/loc/biocbuild/bbs-2.1-bioc/meat/fbat.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-04-17 r41210)
* checking for file 'fbat/DESCRIPTION' ... OK
* this is package 'fbat' version '1.1.1'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'fbat' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking for CRLF line endings in C/C++/Fortran sources/headers ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating fbat-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating fbat-manual.tex ... OK
* checking fbat-manual.tex ... OK

* Installing *source* package 'fbat' ...
** libs
gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/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' might be used uninitialized in this function
FBAT.c: In function `oneNuclearFamily':
FBAT.c:1859: warning: `sex1' might be used uninitialized in this function
FBAT.c:1859: warning: `sex2' might be used uninitialized in this function
FBAT.c: In function `decomposePed':
FBAT.c:1986: warning: `i' might be used uninitialized in this function
FBAT.c: In function `checkoneNuclearFamily':
FBAT.c:1667: warning: `sex1' might be used uninitialized in this function
FBAT.c:1667: warning: `sex2' might be used uninitialized in this function
FBAT.c: In function `checkdecomposePed':
FBAT.c:1590: warning: `i' might be used uninitialized in this function
FBAT.c: In function `checkCompatible':
FBAT.c:1404: warning: `start2' might be used uninitialized in this function
FBAT.c: In function `fbat':
FBAT.c:43: warning: `start2' might be used uninitialized in this function
g77   -fpic  -g -O2 -Wall -c missGFreq.f -o missGFreq.o
gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/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/lib -o fbat.so FBAT.o missGFreq.o register.o  -lg2c -lm -L/loc/biocbuild/bbs-2.1-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
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
 >>> Building/Updating help pages for package 'fbat'
     Formats: text html latex example 
  CAMP                              text    html    latex   example
  checkMarkers                      text    html    latex   example
  checkMendelian                    text    html    latex   example
  fbat                              text    html    latex   example
  geneSet2Ped                       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
  summaryPvalue                     text    html    latex   example
  viewFlagHomo                      text    html    latex   example
  viewHW                            text    html    latex   example
  viewstat                          text    html    latex   example
** building package indices ...
Loading required package: methods
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
* DONE (fbat)