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Package 33/260HostnameOS / ArchBUILDCHECKBUILD BIN
bgx 1.4.2
Ernest Turro
Snapshot Date: 2008-10-16 00:10:09 -0700 (Thu, 16 Oct 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_2/madman/Rpacks/bgx
Last Changed Rev: 33829 / Revision: 34573
Last Changed Date: 2008-09-19 04:28:36 -0700 (Fri, 19 Sep 2008)
lamb1 Linux (SUSE 10.1) / x86_64  OK  OK 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  OK 
wellington Linux (openSUSE 10.3) / i686  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 
Package: bgx
Version: 1.4.2
Command: E:\biocbld\bbs-2.2-bioc\R\bin\R.exe CMD check bgx_1.4.2.tar.gz
StartedAt: 2008-10-16 05:12:41 -0700 (Thu, 16 Oct 2008)
EndedAt: 2008-10-16 05:17:14 -0700 (Thu, 16 Oct 2008)
EllapsedTime: 272.5 seconds
RetCode: 0
Status: OK
CheckDir: bgx.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.2-bioc/meat/bgx.Rcheck'
* using R version 2.7.2 (2008-08-25)
* using session charset: ISO8859-1
* checking for file 'bgx/DESCRIPTION' ... OK
* this is package 'bgx' version '1.4.2'
* 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 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
* 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 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 ... OK
* creating bgx-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating bgx-manual.tex ... OK
* checking bgx-manual.tex using pdflatex ... OK

bgx.Rcheck/00install.out:

installing R.css in E:/biocbld/bbs-2.2-bioc/meat/bgx.Rcheck


---------- Making package bgx ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  making DLL ...
making qnorm.d from qnorm.c
making bgx.d from bgx.cc
making bgx_frontend.d from bgx_frontend.cc
making rundir.d from rundir.cc
making sokal.d from sokal.cc
gcc  -std=gnu99 -I ../boostIncl -Ie:/biocbld/bbs-2.2-bioc/R/include   -DUSING_R -march=i486 -ffast-math -O3  -std=c99  -O3 -Wall  -c qnorm.c -o qnorm.o
g++  -I ../boostIncl -Ie:/biocbld/bbs-2.2-bioc/R/include   -DUSING_R -march=i486 -ffast-math -O3  -O2 -Wall  -c bgx.cc -o bgx.o
g++  -I ../boostIncl -Ie:/biocbld/bbs-2.2-bioc/R/include   -DUSING_R -march=i486 -ffast-math -O3  -O2 -Wall  -c bgx_frontend.cc -o bgx_frontend.o
g++  -I ../boostIncl -Ie:/biocbld/bbs-2.2-bioc/R/include   -DUSING_R -march=i486 -ffast-math -O3  -O2 -Wall  -c rundir.cc -o rundir.o
g++  -I ../boostIncl -Ie:/biocbld/bbs-2.2-bioc/R/include   -DUSING_R -march=i486 -ffast-math -O3  -O2 -Wall  -c sokal.cc -o sokal.o
windres --preprocessor="gcc -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.2-bioc/R/include  -i bgx_res.rc -o bgx_res.o
g++   -shared -s  -o bgx.dll bgx.def qnorm.o bgx.o bgx_frontend.o rundir.o sokal.o bgx_res.o  -Le:/biocbld/bbs-2.2-bioc/R/bin    -lR
  ... DLL made
  installing DLL
  installing R files
  installing inst files
  preparing package bgx for lazy loading
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

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

Loading required package: affy
Loading required package: affyio
Loading required package: preprocessCore
Loading required package: gcrma
Loading required package: matchprobes
Loading required package: splines
  installing man source files
  installing indices
  installing help
Note: removing empty section \examples
Note: removing empty section \examples
Note: removing empty section \examples
Note: removing empty section \examples
Note: removing empty section \examples
Note: removing empty section \examples
Note: removing empty section \value
Note: removing empty section \details
Note: removing empty section \examples
Note: removing empty section \value
Note: removing empty section \details
Note: removing empty section \examples
Note: removing empty section \details
Note: removing empty section \examples
Note: removing empty section \details
Note: removing empty section \examples
 >>> Building/Updating help pages for package 'bgx'
     Formats: text html latex example chm 
  analysis.bgx                      text    html    latex           chm
  bgx                               text    html    latex   example chm
  mcmc.bgx                          text    html    latex           chm
  readOutput.bgx                    text    html    latex           chm
  saveAffinityPlot.bgx              text    html    latex           chm
  setupVars.bgx                     text    html    latex           chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\bbs-2.2-bioc\meat\bgx.Rcheck\00_pkg_src\bgx\chm\bgx.chm


Compile time: 0 minutes, 1 second
7	Topics
35	Local links
0	Internet links
1	Graphic


Created e:\biocbld\bbs-2.2-bioc\meat\bgx.Rcheck\00_pkg_src\bgx\chm\bgx.chm, 27,356 bytes
Compression decreased file by 4,950 bytes.
  adding MD5 sums

* DONE (bgx)