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Package 320/389 | Hostname | OS / Arch | BUILD | CHECK | BUILD BIN | ||||
RNAither 1.8.1 Nora Rieber
| wilson1 | Linux (openSUSE 11.1) / 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 |
Package: RNAither |
Version: 1.8.1 |
Command: E:\biocbld\bbs-2.6-bioc\R\bin\R.exe CMD check --no-vignettes --timings RNAither_1.8.1.tar.gz |
StartedAt: 2010-10-04 19:56:08 -0700 (Mon, 04 Oct 2010) |
EndedAt: 2010-10-04 20:00:38 -0700 (Mon, 04 Oct 2010) |
EllapsedTime: 269.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RNAither.Rcheck |
Warnings: 0 |
* checking for working pdflatex ... OK * using log directory 'E:/biocbld/bbs-2.6-bioc/meat/RNAither.Rcheck' * using R version 2.11.1 (2010-05-31) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'RNAither/DESCRIPTION' ... OK * this is package 'RNAither' version '1.8.1' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'RNAither' can be installed ... OK * checking package directory ... OK * checking for portable file names ... 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 data for non-ASCII characters ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ... SKIPPED * checking PDF version of manual ... OK
RNAither.Rcheck/00install.out:
* install options are ' --no-html' * installing *source* package 'RNAither' ... ** R ** data ** inst ** preparing package for lazy loading Loading required package: graph Loading required package: Biobase Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation(pkgname)'. Loading required package: GO.db Loading required package: AnnotationDbi Loading required package: DBI Loading required package: SparseM Package SparseM (0.86) loaded. To cite, see citation("SparseM") Attaching package: 'SparseM' The following object(s) are masked from 'package:base': backsolve groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built. Loading required package: RColorBrewer Loading required package: grid Loading required package: rrcov Loading required package: robustbase Loading required package: pcaPP Loading required package: mvtnorm Scalable Robust Estimators with High Breakdown Point (version 1.1-00) ** help *** installing help indices ** building package indices ... ** testing if installed package can be loaded * DONE (RNAither)
RNAither.Rcheck/RNAither-Ex.timings:
name | user | system | elapsed | |
BScore | 0.17 | 0.01 | 0.19 | |
DRQualControl | 0.04 | 0.02 | 0.09 | |
LiWongRank | 0.15 | 0.02 | 0.15 | |
MannWhitney | 0.06 | 0.00 | 0.07 | |
RankProduct | 0.73 | 0.00 | 0.74 | |
SNRQualControl | 0.03 | 0.01 | 0.07 | |
Ttest | 0.07 | 0.00 | 0.06 | |
ZPRIMEQualControl | 0.03 | 0.02 | 0.06 | |
ZScore | 0.03 | 0.00 | 0.04 | |
ZScorePerScreen | 0.01 | 0.01 | 0.03 | |
ZScorePlot | 0.07 | 0.02 | 0.07 | |
ZScorePlotTwo | 0.00 | 0.01 | 0.04 | |
channelPlot | 0.00 | 0.02 | 0.05 | |
closestToZero | 0.01 | 0.00 | 0.01 | |
compareHits | 0.06 | 0.03 | 0.11 | |
compareReplicaPlates | 0.04 | 0.00 | 0.05 | |
compareReplicateSD | 0.17 | 0.05 | 0.23 | |
compareReplicateSDPerScreen | 0.40 | 0.03 | 0.44 | |
compareReplicates | 0.08 | 0.03 | 0.11 | |
controlDensity | 0.01 | 0.02 | 0.07 | |
controlDensityPerPlate | 0.16 | 0.03 | 0.18 | |
controlDensityPerScreen | 0.09 | 0.00 | 0.10 | |
controlNorm | 0.18 | 0.00 | 0.17 | |
createSubset | 0.00 | 0.01 | 0.01 | |
discardLabtek | 0.00 | 0.02 | 0.02 | |
discardWells | 0 | 0 | 0 | |
divNorm | 0.01 | 0.01 | 0.03 | |
divideChannels | 0 | 0 | 0 | |
eraseDataSetColumn | 0.02 | 0.00 | 0.02 | |
findReplicates | 0.00 | 0.02 | 0.01 | |
furthestFromZero | 0.00 | 0.02 | 0.02 | |
generateDatasetFile | 0.00 | 0.01 | 0.01 | |
generateRepMatNoFilter | 0.02 | 0.00 | 0.02 | |
generateReplicateMat | 0.03 | 0.00 | 0.03 | |
gseaAnalysis | 3.33 | 0.08 | 9.00 | |
hitselectionPval | 0.04 | 0.00 | 0.05 | |
hitselectionZscore | 0.07 | 0.00 | 0.06 | |
hitselectionZscorePval | 0.06 | 0.00 | 0.06 | |
incorporatepValVec | 0.05 | 0.00 | 0.05 | |
indexSubset | 0.00 | 0.01 | 0.01 | |
joinDatasetFiles | 0.00 | 0.02 | 0.05 | |
joinDatasets | 0.00 | 0.02 | 0.02 | |
lowessNorm | 0.01 | 0.01 | 0.03 | |
mainAnalysis | 31.22 | 4.00 | 99.53 | |
makeBoxplot4PlateType | 0.03 | 0.00 | 0.08 | |
makeBoxplotControls | 0.02 | 0.02 | 0.05 | |
makeBoxplotControlsPerPlate | 0.06 | 0.01 | 0.11 | |
makeBoxplotControlsPerScreen | 0.03 | 0.03 | 0.07 | |
makeBoxplotPerPlate | 0.06 | 0.02 | 0.07 | |
makeBoxplotPerScreen | 0.03 | 0.00 | 0.04 | |
multTestAdjust | 0.02 | 0.00 | 0.01 | |
numCellQualControl | 0.03 | 0.02 | 0.06 | |
orderGeneIDs | 0.12 | 0.01 | 0.14 | |
percCellQualControl | 0.05 | 0.00 | 0.06 | |
plotBar | 0.16 | 0.02 | 0.17 | |
plotControlHisto | 0.10 | 0.01 | 0.12 | |
plotControlHistoPerplate | 0.35 | 0.05 | 0.41 | |
plotControlHistoPerscreen | 0.15 | 0.05 | 0.20 | |
plotHisto | 0.04 | 0.00 | 0.05 | |
plotHistoPerplate | 0.03 | 0.04 | 0.07 | |
plotHistoPerscreen | 0.01 | 0.03 | 0.05 | |
plotQQ | 0.02 | 0.00 | 0.03 | |
plotQQperplate | 0.08 | 0.02 | 0.11 | |
plotQQperscreen | 0.03 | 0.02 | 0.04 | |
quantileNormalization | 0.04 | 0.00 | 0.05 | |
replicatesCV | 0.07 | 0.01 | 0.08 | |
replicatesSpearmancor | 0.04 | 0.02 | 0.06 | |
rms | 0 | 0 | 0 | |
saveDataset | 0.02 | 0.03 | 0.04 | |
saveOldIntensityColumns | 0 | 0 | 0 | |
savepValVec | 0.02 | 0.00 | 0.02 | |
spatialDistrib | 0.51 | 0.08 | 0.64 | |
spatialDistribHits | 0.53 | 0.11 | 1.39 | |
subtractBackground | 0.03 | 0.00 | 0.03 | |
sumChannels | 0.03 | 0.00 | 0.05 | |
summarizeReps | 0.13 | 0.00 | 0.12 | |
summarizeRepsNoFiltering | 0.11 | 0.00 | 0.11 | |
trim | 0.00 | 0.01 | 0.02 | |
varAdjust | 0.03 | 0.00 | 0.03 | |
vennDiag | 0.11 | 0.03 | 0.17 | |
volcanoPlot | 0.06 | 0.02 | 0.08 | |