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Package 178/479HostnameOS / ArchBUILDCHECKBUILD BIN
genefu 1.3.2
Benjamin Haibe-Kains , Markus Schroeder
Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/genefu
Last Changed Rev: 55722 / Revision: 56603
Last Changed Date: 2011-05-19 10:51:16 -0700 (Thu, 19 May 2011)
wilson2 Linux (openSUSE 11.4) / 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 
moscato1 Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: genefu
Version: 1.3.2
Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings genefu_1.3.2.tar.gz
StartedAt: 2011-07-07 00:35:47 -0700 (Thu, 07 Jul 2011)
EndedAt: 2011-07-07 00:36:56 -0700 (Thu, 07 Jul 2011)
EllapsedTime: 69.0 seconds
RetCode: 0
Status:  OK 
CheckDir: genefu.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/genefu.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-15 r56138)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘genefu/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘genefu’ version ‘1.3.2’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘genefu’ 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 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 ... NOTE
Package(s) unavailable to check Rd xrefs: ‘multilevel’, ‘dplR’
* 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 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

genefu.Rcheck/00install.out:

* installing *source* package ‘genefu’ ...
** R
** data
**  moving datasets to lazyload DB
** inst
** preparing package for lazy loading
Loading required package: survival
Loading required package: splines
Loading required package: grid
Loading required package: rmeta
Loading required package: KernSmooth
KernSmooth 2.23 loaded
Copyright M. P. Wand 1997-2009
Loading required package: bootstrap
Loading required package: survivalROC
Loading required package: rpart
Loading required package: MASS
Loading required package: mlbench
Loading required package: class
Loading required package: nnet

by using mclust, invoked on its own or through another package,
you accept the license agreement in the mclust LICENSE file
and at http://www.stat.washington.edu/mclust/license.txt


Attaching package: ‘mclust’

The following object(s) are masked from ‘package:bootstrap’:

    diabetes

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")'.

** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘genefu.Rnw’ 
** testing if installed package can be loaded

by using mclust, invoked on its own or through another package,
you accept the license agreement in the mclust LICENSE file
and at http://www.stat.washington.edu/mclust/license.txt


* DONE (genefu)

genefu.Rcheck/genefu-Ex.timings:

nameusersystemelapsed
bimod0.4160.0080.426
boxplotplus20.0040.0040.008
compare.proto.cor1.3920.0041.402
compute.pairw.cor.meta1.9560.0041.959
compute.proto.cor.meta0.9680.0000.974
cordiff.dep0.0200.0000.019
gene700.2520.0080.258
gene760.0720.0000.075
geneid.map0.1120.0040.115
genius0.4880.0000.486
ggi0.1120.0000.113
intrinsic.cluster0.3760.0040.375
intrinsic.cluster.predict0.2680.0000.269
map.datasets0.5560.0120.567
mod10.0040.0000.003
mod20.0040.0000.002
nki0.0040.0000.003
npi0.0000.0040.007
oncotypedx0.1880.0080.196
pam500.0160.0040.020
pik3cags0.1000.0000.101
ps.cluster0.9840.0081.004
read.m.file0.0720.0000.074
rename.duplicate0.0000.0000.003
rescale0.0560.0080.066
scmgene0.0040.0040.009
scmod10.0120.0000.010
scmod20.0080.0000.009
sig.gene700.0080.0040.010
sig.gene760.0160.0040.023
sig.genius0.0320.0040.036
sig.ggi0.0120.0040.014
sig.oncotypedx0.0080.0040.010
sig.pik3cags0.0040.0040.009
sig.score0.1640.0040.175
sig.tamr130.0080.0000.008
ssp20030.0280.0040.032
ssp20060.0640.0040.066
st.gallen0.0080.0040.026
stab.fs0.3480.0000.350
stab.fs.ranking1.7240.0001.722
strescR0.0000.0040.002
subtype.cluster0.6320.0040.638
subtype.cluster.predict0.3600.0000.359
tamr130.1600.0000.161
tbrm0.0000.0000.001
vdx0.0080.0000.004
weighted.meanvar000
weighted.ttest0.0000.0000.001
write.m.file0.0040.0000.004