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Package 94/319HostnameOS / ArchBUILDCHECKBUILD BIN
fbat 1.8.0
The R Genetics Project
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/fbat
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 
Package: fbat
Version: 1.8.0
Command: /Library/Frameworks/R.framework/Versions/2.9/Resources/bin/R CMD check --no-vignettes fbat_1.8.0.tar.gz
StartedAt: 2009-10-20 17:29:09 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 17:29:55 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 45.4 seconds
RetCode: 0
Status: OK
CheckDir: fbat.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.4-bioc/meat/fbat.Rcheck'
* using R version 2.9.2 Patched (2009-08-24 r49420)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'fbat/DESCRIPTION' ... OK
* this is package 'fbat' version '1.8.0'
* checking package name space information ... OK
* 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 files against version 2 parser ... 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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

fbat.Rcheck/00install.out:

* Installing *source* package ‘fbat’ ...
** libs
** arch - i386
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include    -fPIC  -g -O2 -Wall -c FBAT.c -o FBAT.o
gfortran-4.2 -arch i386   -fPIC  -g -O2 -Wall -c missGFreq.f -o missGFreq.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/i386  -I/usr/local/include    -fPIC  -g -O2 -Wall -c register.c -o register.o
gcc-4.2 -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o fbat.so FBAT.o missGFreq.o register.o -lgfortran -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -Wall -c FBAT.c -o FBAT.o
gfortran-4.2 -arch ppc   -fPIC  -g -O2 -Wall -c missGFreq.f -o missGFreq.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -Wall -c register.c -o register.o
gcc-4.2 -arch ppc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o fbat.so FBAT.o missGFreq.o register.o -lgfortran -lSystemStubs -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - ppc64
gcc-4.2 -arch ppc64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc64  -I/usr/local/include    -fPIC  -g -O2 -Wall -c FBAT.c -o FBAT.o
gfortran-4.2 -arch ppc64   -fPIC  -g -O2 -Wall -c missGFreq.f -o missGFreq.o
gcc-4.2 -arch ppc64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/ppc64  -I/usr/local/include    -fPIC  -g -O2 -Wall -c register.c -o register.o
gcc-4.2 -arch ppc64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o fbat.so FBAT.o missGFreq.o register.o -lgfortran -lSystemStubs -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** arch - x86_64
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/x86_64  -I/usr/local/include    -fPIC  -g -O2 -Wall -c FBAT.c -o FBAT.o
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -c missGFreq.f -o missGFreq.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include -I/Library/Frameworks/R.framework/Versions/2.9/Resources/include/x86_64  -I/usr/local/include    -fPIC  -g -O2 -Wall -c register.c -o register.o
gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o fbat.so FBAT.o missGFreq.o register.o -lgfortran -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** R
** data
** inst
** preparing package for lazy loading
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
Loading required package: haplo.stats
** help
*** installing help indices
 >>> 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
Note: removing empty section \details in file 'getFounders.Rd'
Note: removing empty section \note in file 'getFounders.Rd'
Note: removing empty section \examples in file 'getFounders.Rd'
Note: removing empty section \seealso in file 'getFounders.Rd'
  getFounders                       text    html    latex
Note: removing empty section \details in file 'missGFreq.Rd'
  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
Note: removing empty section \note in file 'readHapMap.Rd'
Note: removing empty section \references in file 'readHapMap.Rd'
Note: removing empty section \examples in file 'readHapMap.Rd'
Note: removing empty section \seealso in file 'readHapMap.Rd'
  readHapMap                        text    html    latex
Note: removing empty section \note in file 'readLink.Rd'
Note: removing empty section \references in file 'readLink.Rd'
Note: removing empty section \examples in file 'readLink.Rd'
Note: removing empty section \seealso in file 'readLink.Rd'
  readLink                          text    html    latex
Note: removing empty section \details in file 'readPed.Rd'
Note: removing empty section \note in file 'readPed.Rd'
Note: removing empty section \examples in file 'readPed.Rd'
  readPed                           text    html    latex
Note: removing empty section \source in file 'sampleInfoCEU.Rd'
Note: removing empty section \details in file 'sampleInfoCEU.Rd'
Note: removing empty section \references in file 'sampleInfoCEU.Rd'
  sampleInfoCEU                     text    html    latex   example
Note: removing empty section \source in file 'sampleInfoCHB.Rd'
Note: removing empty section \details in file 'sampleInfoCHB.Rd'
Note: removing empty section \references in file 'sampleInfoCHB.Rd'
  sampleInfoCHB                     text    html    latex   example
Note: removing empty section \source in file 'sampleInfoJPT.Rd'
Note: removing empty section \details in file 'sampleInfoJPT.Rd'
Note: removing empty section \references in file 'sampleInfoJPT.Rd'
  sampleInfoJPT                     text    html    latex   example
Note: removing empty section \source in file 'sampleInfoYRI.Rd'
Note: removing empty section \details in file 'sampleInfoYRI.Rd'
Note: removing empty section \references in file 'sampleInfoYRI.Rd'
  sampleInfoYRI                     text    html    latex   example
Note: removing empty section \value in file 'summaryPvalue.Rd'
  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)