Package: GeneGroupAnalysis

Version: 1.2.0

Command: /home/hpages/test-puck5/bbs-2.10-bioc/R/bin/R CMD check --no-vignettes --timings GeneGroupAnalysis_1.2.0.tar.gz

StartedAt: 2012-04-01 01:06:53 -0700 (Sun, 01 Apr 2012)

EndedAt: 2012-04-01 01:09:19 -0700 (Sun, 01 Apr 2012)

EllapsedTime: 145.8 seconds

RetCode: 0

Status:  OK

CheckDir: GeneGroupAnalysis.Rcheck

Warnings: 0

* using log directory '/loc/home/hpages/test-puck5/bbs-2.10-bioc/meat/GeneGroupAnalysis.Rcheck'
* using R version 2.15.0 RC (2012-03-22 r58802)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GeneGroupAnalysis/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GeneGroupAnalysis' version '1.2.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package 'GeneGroupAnalysis' can be installed ... OK
* checking installed package size ... 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 package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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
GeneGrps2AffyGrpsFun: no visible binding for global variable 'GGAdata'
* checking Rd files ... OK
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... 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

NOTE: There was 1 note.
See
  '/loc/home/hpages/test-puck5/bbs-2.10-bioc/meat/GeneGroupAnalysis.Rcheck/00check.log'
for details.

* installing *source* package 'GeneGroupAnalysis' ...
** libs
gcc -std=gnu99 -I/home/hpages/test-puck5/bbs-2.10-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c ConditionalsAll.c -o ConditionalsAll.o
gcc -std=gnu99 -shared -L/usr/local/lib -o GeneGroupAnalysis.so ConditionalsAll.o -L/home/hpages/test-puck5/bbs-2.10-bioc/R/lib -lR
installing to /loc/home/hpages/test-puck5/bbs-2.10-bioc/meat/GeneGroupAnalysis.Rcheck/GeneGroupAnalysis/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'GeneGroupAnalysis.Rnw' using 'UTF-8' 
** testing if installed package can be loaded

* DONE (GeneGroupAnalysis)

name	user	system	elapsed
ArrayInfoFun	0	0	0
GGAdata	8.204	0.072	8.286
GeneGrps2AffyGrpsFun	0	0	0
GeneMaxVarFun	0	0	0
GibbsAllFun.ts	23.982	0.308	24.656
GibbsFun.cs	0	0	0
GibbsNPFun.ts	0	0	0
MCMCData.cs	0	0	0
MCMCData.ts	0	0	0
SizeGOAffyGrps	0	0	0