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Package 137/389HostnameOS / ArchBUILDCHECKBUILD BIN
gcrma 2.20.0
Z. Wu
Snapshot Date: 2010-10-04 11:22:20 -0700 (Mon, 04 Oct 2010)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/gcrma
Last Changed Rev: 46401 / Revision: 49923
Last Changed Date: 2010-04-22 11:21:23 -0700 (Thu, 22 Apr 2010)
wilson1 Linux (openSUSE 11.1) / 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 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: gcrma
Version: 2.20.0
Command: E:\biocbld\bbs-2.6-bioc\R\bin\R.exe CMD check --no-vignettes --timings gcrma_2.20.0.tar.gz
StartedAt: 2010-10-04 18:11:32 -0700 (Mon, 04 Oct 2010)
EndedAt: 2010-10-04 18:14:56 -0700 (Mon, 04 Oct 2010)
EllapsedTime: 204.5 seconds
RetCode: 0
Status:  OK  
CheckDir: gcrma.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.6-bioc/meat/gcrma.Rcheck'
* using R version 2.11.1 (2010-05-31)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'gcrma/DESCRIPTION' ... OK
* this is package 'gcrma' version '2.20.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'gcrma' 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 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 ... NOTE
compute.affinities: no visible binding for global variable
  'affinity.spline.coefs'
compute.affinities.nomm: no visible binding for global variable
  'affinity.spline.coefs'
compute.affinities2: no visible binding for global variable
  'affinity.spline.coefs'
just.gcrma: possible error in gsub("^/?([^/]*/)*", "",
  unlist(filenames), extended = TRUE): unused argument(s) (extended =
  TRUE)
* checking Rd files ... NOTE
prepare_Rd: gcrma.engine.Rd:59-61: Dropping empty section \examples
prepare_Rd: gcrma.engine2.Rd:62-63: Dropping empty section \examples
prepare_Rd: justGCRMA.Rd:109-111: 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 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

gcrma.Rcheck/00install.out:

* install options are ' --no-html'

* installing *source* package 'gcrma' ...
** libs
  making DLL ...
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include"         -O3 -Wall  -std=gnu99 -c baseProfile.c -o baseProfile.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include"         -O3 -Wall  -std=gnu99 -c computeAffinities.c -o computeAffinities.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include"         -O3 -Wall  -std=gnu99 -c postmean.c -o postmean.o
gcc -shared -s -static-libgcc -o gcrma.dll tmp.def baseProfile.o computeAffinities.o postmean.o -LE:/biocbld/bbs-2.6-bioc/R/bin -lR
installing to E:/biocbld/bbs-2.6-bioc/meat/gcrma.Rcheck/gcrma/libs
  ... done
** R
** data
** inst
** preparing package for lazy loading
Loading required package: Biobase

Welcome to Bioconductor

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

** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (gcrma)

gcrma.Rcheck/gcrma-Ex.timings:

nameusersystemelapsed
bg.adjust.gcrma56.52 0.4357.67
gcrma49.98 0.5050.72