Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L  M  N  O  P  Q  R [S] T  U  V  W  X  Y  Z 

Package 593/671HostnameOS / ArchBUILDCHECKBUILD BIN
sigaR 1.4.0
Wessel N. van Wieringen
Snapshot Date: 2013-04-30 17:01:37 -0700 (Tue, 30 Apr 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/sigaR
Last Changed Rev: 75263 / Revision: 76155
Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 
pelham Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: sigaR
Version: 1.4.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch sigaR_1.4.0.tar.gz
StartedAt: 2013-05-01 10:54:37 -0700 (Wed, 01 May 2013)
EndedAt: 2013-05-01 11:03:08 -0700 (Wed, 01 May 2013)
EllapsedTime: 510.7 seconds
RetCode: 0
Status:  OK 
CheckDir: sigaR.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/sigaR.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'sigaR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'sigaR' version '1.4.0'
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'sigaR' can be installed ... [9s/10s] OK
* checking installed package size ... OK
* checking package directory ... 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 ... NOTE
ExpressionSet2weightedSubset: no visible binding for global variable
  'sigaR'
RCMestimation : RCMmlH2: multiple local function definitions for
  'tau.estimator' with different formal arguments
RCMtest: no visible binding for global variable 'sigaR'
RCMtest: no visible binding for global variable 'quadprog'
RCMtest: no visible binding for global variable 'MASS'
cghCall2maximumSubset: no visible binding for global variable 'sigaR'
cghCall2weightedSubset: no visible binding for global variable 'sigaR'
cghSeg2weightedSubset: no visible binding for global variable 'sigaR'
entropyTest: no visible binding for global variable 'sigaR'
entropyTest: no visible binding for global variable 'corpcor'
matchAnn2Ann: no visible binding for global variable 'sigaR'
matchCGHcall2ExpressionSet: no visible binding for global variable
  'sigaR'
mutInfTest: no visible binding for global variable 'sigaR'
mutInfTest: no visible binding for global variable 'corpcor'
* 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 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 ... [387s/395s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
mutInfTest     291.788 32.643 331.371
cisEffectTune   27.193  0.296  27.635
pathway2sample   5.967  1.384   7.478
RCMtest          6.484  0.028   6.804
* 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 was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/sigaR.Rcheck/00check.log'
for details.

sigaR.Rcheck/00install.out:

* installing *source* package 'sigaR' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (sigaR)

sigaR.Rcheck/sigaR-Ex.timings:

nameusersystemelapsed
CNGEheatmaps1.7030.0521.815
ExpressionSet2order0.0250.0010.027
ExpressionSet2subset0.0230.0020.024
ExpressionSet2weightedSubset0.3230.0140.338
RCMestimation1.7510.0401.828
RCMrandom1.7500.0171.786
RCMtest6.4840.0286.804
cghCall2cghSeg0.0920.0020.097
cghCall2maximumSubset0.5560.0240.586
cghCall2order0.0330.0030.035
cghCall2subset0.1080.0050.113
cghCall2weightedSubset0.5320.0110.543
cghSeg2order0.1100.0020.113
cghSeg2subset0.1390.0020.141
cghSeg2weightedSubset0.3770.0070.385
cisEffectPlot0.1280.0040.136
cisEffectTable2.9670.0823.084
cisEffectTest2.7520.0772.844
cisEffectTune27.193 0.29627.635
cisTest-class0.0090.0000.011
entTest-class0.0110.0010.012
entropyTest0.2850.0030.298
expandMatching2singleIDs0.0910.0060.097
getSegFeatures0.0230.0030.027
hdEntropy0.0250.0020.027
hdMI0.5480.0030.552
matchAnn2Ann0.0730.0060.078
matchCGHcall2ExpressionSet0.0960.0040.101
merge2ExpressionSets0.1080.0010.110
merge2cghCalls0.1480.0040.151
miTest-class0.0060.0020.008
mutInfTest291.788 32.643331.371
nBreakpoints0.4120.0180.432
pathway1sample0.2380.0410.280
pathway2sample5.9671.3847.478
pathwayFit-class0.0030.0050.008
pathwayPlot0.1900.0530.258
pollackCN160.0090.0050.014
pollackGE160.0050.0050.011
profilesPlot0.2230.0180.266
rcmFit-class0.0030.0040.009
rcmTest-class0.0030.0040.007
splitMatchingAtBreakpoints0.4150.0230.446
uniqGenomicInfo0.0140.0080.023