Package: Starr

Version: 1.9.2

Command: E:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch Starr_1.9.2.tar.gz

StartedAt: 2011-06-02 16:07:41 -0700 (Thu, 02 Jun 2011)

EndedAt: 2011-06-02 16:10:59 -0700 (Thu, 02 Jun 2011)

EllapsedTime: 198.6 seconds

RetCode: 0

Status:  OK

CheckDir: Starr.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/Starr.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-04-17 r55484)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Starr/DESCRIPTION' ... OK
* this is package 'Starr' version '1.9.2'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Starr' 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
* 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 ... 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 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 ... 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

* installing *source* package 'Starr' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c ahocorasick.c -o ahocorasick.o
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c collect.c -o collect.o
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c rm_small_peak.c -o rm_small_peak.o
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c sort_by_genomic.c -o sort_by_genomic.o
gcc -shared -s -static-libgcc -o Starr.dll tmp.def ahocorasick.o collect.o rm_small_peak.o sort_by_genomic.o -lRzlib -LE:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.9-bioc/meat/Starr.Rcheck/Starr/libs/i386
** R
** inst
** preparing package for lazy loading
Loading required package: Biobase

Welcome to Bioconductor

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

Loading required package: RColorBrewer
Loading required package: limma
Loading required package: Matrix
Loading required package: lattice

Attaching package: 'Matrix'

The following object(s) are masked from 'package:base':

    det

Loading required package: grid

Attaching package: 'affy'

The following object(s) are masked from 'package:Ringo':

    probes

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

* DONE (Starr)

name	user	system	elapsed
bpmapToProbeAnno	0	0	0
cmarrt.ma	0	0	0
cmarrt.peak	0	0	0
correlationPlot	0.04	0.00	0.05
densityscatter	2.50	0.11	2.67
filterGenes	0	0	0
getMeans	0	0	0
getProfiles	0	0	0
getRatio	0	0	0
kde2dplot	0.55	0.04	0.58
makeSplines	0	0	0
normalize.Probes	0	0	0
plot.Density	1.08	0.01	1.09
plot.boxes	2.42	0.08	2.50
plot.cmarrt	0	0	0
plot.gcBias	1.94	0.00	1.95
plot.image	0	0	0
plot.ma	4.47	0.05	4.60
plot.posBias	5.40	0.01	5.42
plot.ratioScatter	1.35	0.03	1.39
plot.scatter	1.40	0.02	1.44
plotProfiles	0.63	0.00	0.62
profileplot	1.12	0.00	1.13
read.gffAnno	0	0	0
readCelFile	0	0	0
remap	0	0	0