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Package 55/479HostnameOS / ArchBUILDCHECKBUILD BIN
bgx 1.17.0
Ernest Turro
Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/bgx
Last Changed Rev: 54802 / Revision: 56603
Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise (64-bit) / x64  OK [ OK ] OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: bgx
Version: 1.17.0
Command: mkdir bgx.buildbin-libdir && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=bgx.buildbin-libdir bgx_1.17.0.tar.gz >bgx-install.out 2>&1 && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --library=bgx.buildbin-libdir --install="check:bgx-install.out" --force-multiarch --no-vignettes --timings bgx_1.17.0.tar.gz && mv bgx.buildbin-libdir/* bgx.Rcheck/ && rmdir bgx.buildbin-libdir
StartedAt: 2011-07-07 04:15:47 -0700 (Thu, 07 Jul 2011)
EndedAt: 2011-07-07 04:21:53 -0700 (Thu, 07 Jul 2011)
EllapsedTime: 366.5 seconds
RetCode: 0
Status:  OK  
CheckDir: bgx.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/bgx.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-20 r56188)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'bgx/DESCRIPTION' ... OK
* this is package 'bgx' version '1.17.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'bgx' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the name space can be loaded with stated dependencies ... OK
** checking whether the name space can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the name space can be loaded with stated dependencies ... OK
** checking whether the name space can be unloaded cleanly ... 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 ... NOTE
prepare_Rd: analysis.bgx.Rd:48-49: Dropping empty section \examples
prepare_Rd: mcmc.bgx.Rd:48-49: Dropping empty section \examples
prepare_Rd: readOutput.bgx.Rd:23-24: Dropping empty section \examples
prepare_Rd: saveAffinityPlot.bgx.Rd:18-19: Dropping empty section \details
prepare_Rd: saveAffinityPlot.bgx.Rd:20-21: Dropping empty section \value
prepare_Rd: saveAffinityPlot.bgx.Rd:26-27: Dropping empty section \examples
prepare_Rd: setupVars.bgx.Rd:21-22: Dropping empty section \details
prepare_Rd: setupVars.bgx.Rd:43-44: Dropping empty section \examples
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

bgx.Rcheck/00install.out:


install for i386

* installing *source* package 'bgx' ...
** libs
g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I ../boostIncl      -DUSING_R -ffast-math -O3   -O2 -Wall  -mtune=core2 -c bgx.cc -o bgx.o
g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I ../boostIncl      -DUSING_R -ffast-math -O3   -O2 -Wall  -mtune=core2 -c bgx_frontend.cc -o bgx_frontend.o
gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I ../boostIncl      -DUSING_R -ffast-math -O3  -std=c99   -O3 -Wall  -std=gnu99 -mtune=core2 -c qnorm.c -o qnorm.o
g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I ../boostIncl      -DUSING_R -ffast-math -O3   -O2 -Wall  -mtune=core2 -c rundir.cc -o rundir.o
g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I ../boostIncl      -DUSING_R -ffast-math -O3   -O2 -Wall  -mtune=core2 -c sokal.cc -o sokal.o
g++ -shared -s -static-libgcc -o bgx.dll tmp.def bgx.o bgx_frontend.o qnorm.o rundir.o sokal.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/bgx.buildbin-libdir/bgx/libs/i386
** R
** inst
** preparing package for lazy loading

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'bgx.Rnw' 
** testing if installed package can be loaded

add DLL for x64

* installing *source* package 'bgx' ...
** libs
x86_64-w64-mingw32-g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I ../boostIncl      -DUSING_R -ffast-math -O3   -O2 -Wall  -mtune=core2 -c bgx.cc -o bgx.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I ../boostIncl      -DUSING_R -ffast-math -O3   -O2 -Wall  -mtune=core2 -c bgx_frontend.cc -o bgx_frontend.o
x86_64-w64-mingw32-gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I ../boostIncl      -DUSING_R -ffast-math -O3  -std=c99   -O2 -Wall  -std=gnu99 -mtune=core2 -c qnorm.c -o qnorm.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I ../boostIncl      -DUSING_R -ffast-math -O3   -O2 -Wall  -mtune=core2 -c rundir.cc -o rundir.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I ../boostIncl      -DUSING_R -ffast-math -O3   -O2 -Wall  -mtune=core2 -c sokal.cc -o sokal.o
x86_64-w64-mingw32-g++ -shared -s -static-libgcc -o bgx.dll tmp.def bgx.o bgx_frontend.o qnorm.o rundir.o sokal.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/bgx.buildbin-libdir/bgx/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'bgx' as bgx_1.17.0.zip

* DONE (bgx)

bgx.Rcheck/bgx-Ex.timings:

nameusersystemelapsed
bgx48.3911.9961.50