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Package 410/436HostnameOS / ArchBUILDCHECKBUILD BIN
Starr 1.7.1
Benedikt Zacher
Snapshot Date: 2011-02-24 11:26:35 -0800 (Thu, 24 Feb 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Starr
Last Changed Rev: 51766 / Revision: 53255
Last Changed Date: 2011-01-05 02:53:48 -0800 (Wed, 05 Jan 2011)
lamb2 Linux (openSUSE 11.2) / 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 
petty Mac OS X Snow Leopard (10.6.4) / i386  OK  OK  OK 

Summary

Package: Starr
Version: 1.7.1
Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings Starr_1.7.1.tar.gz
StartedAt: 2011-02-24 23:01:44 -0800 (Thu, 24 Feb 2011)
EndedAt: 2011-02-24 23:03:42 -0800 (Thu, 24 Feb 2011)
EllapsedTime: 117.8 seconds
RetCode: 0
Status:  OK 
CheckDir: Starr.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/Starr.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 ‘Starr/DESCRIPTION’ ... OK
* this is package ‘Starr’ version ‘1.7.1’
* 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 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 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
* checking examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

Starr.Rcheck/00install.out:

* installing *source* package ‘Starr’ ...
creating cache ./config.cache
checking how to run the C preprocessor... cc -E
checking for main in -lz... yes
checking for zlib.h... yes
checking if zlib version >= 1.1.3... yes
updating cache ./config.cache
creating ./config.status
creating src/Makevars
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include -DHAVE_ZLIB=1  -I/usr/local/include    -fpic  -g -O2 -c ahocorasick.c -o ahocorasick.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include -DHAVE_ZLIB=1  -I/usr/local/include    -fpic  -g -O2 -c collect.c -o collect.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include -DHAVE_ZLIB=1  -I/usr/local/include    -fpic  -g -O2 -c rm_small_peak.c -o rm_small_peak.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.8-bioc/R/include -DHAVE_ZLIB=1  -I/usr/local/include    -fpic  -g -O2 -c sort_by_genomic.c -o sort_by_genomic.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o Starr.so ahocorasick.o collect.o rm_small_peak.o sort_by_genomic.o -lz -L/home/biocbuild/bbs-2.8-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.8-bioc/meat/Starr.Rcheck/Starr/libs
** 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 ...
** testing if installed package can be loaded

* DONE (Starr)

Starr.Rcheck/Starr-Ex.timings:

nameusersystemelapsed
bpmapToProbeAnno000
cmarrt.ma0.0000.0000.001
cmarrt.peak000
correlationPlot0.0320.0040.036
densityscatter3.2960.0843.380
filterGenes000
getMeans000
getProfiles0.0040.0000.000
getRatio000
kde2dplot0.6560.0040.662
makeSplines000
normalize.Probes000
plot.Density1.2040.0001.202
plot.boxes2.3560.0322.389
plot.cmarrt0.0000.0000.001
plot.gcBias1.7920.0001.794
plot.image000
plot.ma4.3450.0244.368
plot.posBias5.0640.0125.079
plot.ratioScatter1.2280.0401.266
plot.scatter1.1320.0201.152
plotProfiles0.5520.0040.553
profileplot0.8440.0080.851
read.gffAnno0.0000.0000.001
readCelFile000
remap000