Package: tilingArray

Version: 1.29.0

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings tilingArray_1.29.0.tar.gz

StartedAt: 2011-02-24 23:06:15 -0800 (Thu, 24 Feb 2011)

EndedAt: 2011-02-24 23:07:13 -0800 (Thu, 24 Feb 2011)

EllapsedTime: 57.6 seconds

RetCode: 0

Status:  OK

CheckDir: tilingArray.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/tilingArray.Rcheck’
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘tilingArray/DESCRIPTION’ ... OK
* this is package ‘tilingArray’ version ‘1.29.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘tilingArray’ can be installed ... 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 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 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

* installing *source* package ‘tilingArray’ ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c findsegments.c -o findsegments.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c sampleStep.c -o sampleStep.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o tilingArray.so findsegments.o sampleStep.o -L/home/biocbuild/bbs-2.8-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.8-bioc/meat/tilingArray.Rcheck/tilingArray/libs
** R
** data
** 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 ...
** testing if installed package can be loaded

* DONE (tilingArray)

name	user	system	elapsed
PMindex	0	0	0
class-segmentation	0.172	0.008	0.181
comparisonPlot	0	0	0
costMatrix	0.076	0.000	0.077
findsegments	0.004	0.000	0.001
gffSub	0.268	0.008	0.282
normalizeByReference	0	0	0
otherStrand	0.000	0.000	0.001
plotAlongChrom	0.508	0.004	0.510
plotAlongChromLegend	0	0	0
plotSegmentationHeatmap	0.236	0.016	0.250
plotpenLL	0.008	0.000	0.009
posMin	0	0	0
qcPlots	0	0	0
readCel2eSet	0.000	0.000	0.001
sampleStep	0.000	0.000	0.001
segChrom	0	0	0
segment	0.000	0.000	0.003
segnf	0.244	0.000	0.245