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Package 231/609HostnameOS / ArchBUILDCHECKBUILD BIN
genefu 1.8.0
Benjamin Haibe-Kains , Markus Schroeder
Snapshot Date: 2013-03-24 16:21:20 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_11/madman/Rpacks/genefu
Last Changed Rev: 70050 / Revision: 74773
Last Changed Date: 2012-10-01 15:16:24 -0700 (Mon, 01 Oct 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: genefu
Version: 1.8.0
Command: /home/biocbuild/bbs-2.11-bioc/R/bin/R CMD check --no-vignettes --timings genefu_1.8.0.tar.gz
StartedAt: 2013-03-25 01:19:58 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 01:21:42 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 104.6 seconds
RetCode: 0
Status:  OK 
CheckDir: genefu.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/genefu.Rcheck’
* using R version 2.15.3 (2013-03-01)
* 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 ‘1.8.0’
* 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 ‘genefu’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  6.0Mb
  sub-directories of 1Mb or more:
    data   5.0Mb
* 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 for left-over 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 ... OK
* checking Rd files ... NOTE
prepare_Rd: modelOvcAngioganic.Rd:20-21: Dropping empty section \references
prepare_Rd: sigAngiogenic.Rd:20-21: Dropping empty section \references
prepare_Rd: sigOvcAngiogenic.Rd:20-22: Dropping empty section \references
prepare_Rd: sigOvcCrijns.Rd:20-21: Dropping empty section \references
prepare_Rd: sigOvcSpentzos.Rd:20-21: Dropping empty section \references
prepare_Rd: sigOvcTCGA.Rd:20-21: Dropping empty section \references
prepare_Rd: sigOvcYoshihara.Rd:19-20: Dropping empty section \references
* 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 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 were 3 notes.
See
  ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/genefu.Rcheck/00check.log’
for details.

genefu.Rcheck/00install.out:

* installing *source* package ‘genefu’ ...
** R
** data
**  moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘genefu.Rnw’ 
** testing if installed package can be loaded

* DONE (genefu)

genefu.Rcheck/genefu-Ex.timings:

nameusersystemelapsed
bimod0.5000.0280.586
boxplotplus20.0080.0000.010
compare.proto.cor1.8520.0161.962
compute.pairw.cor.meta1.8160.0201.849
compute.proto.cor.meta0.7840.0080.798
cordiff.dep0.0320.0000.033
expos0.0000.0000.002
fuzzy.ttest0.0000.0040.001
gene700.3520.0040.357
gene760.0440.0000.044
geneid.map0.1040.0000.103
genius0.3160.0160.366
ggi0.0920.0040.105
intrinsic.cluster0.3360.0120.395
intrinsic.cluster.predict0.3320.0200.399
map.datasets0.7560.0160.830
mod10.0000.0000.006
mod20.0000.0000.005
modelOvcAngioganic0.0040.0000.004
nkis0.0000.0040.003
npi0.0080.0000.011
oncotypedx0.1080.0080.125
ovcAngiogenic0.1160.0000.116
ovcCrijns0.2160.0000.217
ovcTCGA0.3480.0040.355
ovcYoshihara0.0720.0120.086
pam500.0240.0000.022
pik3cags0.0880.0000.091
ps.cluster0.8360.0201.147
read.m.file0.0440.0000.047
rename.duplicate0.0040.0000.002
rescale0.0320.0080.048
scmgene.robust0.0040.0000.006
scmod1.robust0.0080.0000.007
scmod2.robust0.0040.0000.006
sig.gene700.0080.0000.005
sig.gene760.0080.0000.009
sig.genius0.0200.0040.024
sig.ggi0.0040.0000.007
sig.oncotypedx0.0000.0000.003
sig.pik3cags0.0040.0000.004
sig.score0.0760.0120.110
sig.tamr130.0040.0000.006
sigAngiogenic0.0080.0040.007
sigOvcAngiogenic0.0040.0000.010
sigOvcCrijns0.0080.0000.009
sigOvcSpentzos0.0080.0000.007
sigOvcTCGA0.0080.0000.009
sigOvcYoshihara0.0080.0000.007
ssp20030.0240.0000.025
ssp20060.0240.0000.027
st.gallen0.0040.0040.021
stab.fs0.2440.0040.252
stab.fs.ranking1.6800.0041.691
strescR0.0000.0000.001
subtype.cluster0.5920.0120.612
subtype.cluster.predict0.2040.0040.254
tamr130.0680.0000.092
tbrm000
vdxs0.0000.0000.002
weighted.meanvar000
write.m.file0.0000.0000.002