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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: /home/biocbuild/bbs-2.6-bioc/R/bin/R CMD check --no-vignettes --timings RNAither_1.8.1.tar.gz |
StartedAt: 2010-10-04 19:35:39 -0700 (Mon, 04 Oct 2010) |
EndedAt: 2010-10-04 19:38:58 -0700 (Mon, 04 Oct 2010) |
EllapsedTime: 198.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RNAither.Rcheck |
Warnings: 0 |
* checking for working pdflatex ... OK * using log directory '/loc/home/biocbuild/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 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 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 | 0.260 | 0.008 | 0.269 | |
DRQualControl | 0.072 | 0.004 | 0.086 | |
LiWongRank | 0.164 | 0.004 | 0.167 | |
MannWhitney | 0.064 | 0.000 | 0.063 | |
RankProduct | 0.736 | 0.000 | 0.770 | |
SNRQualControl | 0.032 | 0.004 | 0.065 | |
Ttest | 0.060 | 0.004 | 0.062 | |
ZPRIMEQualControl | 0.076 | 0.004 | 0.091 | |
ZScore | 0.028 | 0.000 | 0.027 | |
ZScorePerScreen | 0.016 | 0.000 | 0.014 | |
ZScorePlot | 0.076 | 0.000 | 0.079 | |
ZScorePlotTwo | 0.032 | 0.000 | 0.033 | |
channelPlot | 0.048 | 0.004 | 0.051 | |
closestToZero | 0.000 | 0.004 | 0.004 | |
compareHits | 0.076 | 0.004 | 0.087 | |
compareReplicaPlates | 0.028 | 0.000 | 0.051 | |
compareReplicateSD | 0.480 | 0.012 | 0.493 | |
compareReplicateSDPerScreen | 0.304 | 0.012 | 0.318 | |
compareReplicates | 0.140 | 0.000 | 0.143 | |
controlDensity | 0.080 | 0.000 | 0.083 | |
controlDensityPerPlate | 0.188 | 0.000 | 0.187 | |
controlDensityPerScreen | 0.084 | 0.004 | 0.088 | |
controlNorm | 0.020 | 0.000 | 0.021 | |
createSubset | 0.004 | 0.000 | 0.005 | |
discardLabtek | 0.000 | 0.004 | 0.005 | |
discardWells | 0.004 | 0.000 | 0.006 | |
divNorm | 0.024 | 0.000 | 0.023 | |
divideChannels | 0.000 | 0.004 | 0.004 | |
eraseDataSetColumn | 0.020 | 0.000 | 0.021 | |
findReplicates | 0.004 | 0.004 | 0.006 | |
furthestFromZero | 0.000 | 0.004 | 0.004 | |
generateDatasetFile | 0.012 | 0.004 | 0.012 | |
generateRepMatNoFilter | 0.016 | 0.000 | 0.018 | |
generateReplicateMat | 0.024 | 0.000 | 0.024 | |
gseaAnalysis | 5.136 | 0.084 | 9.980 | |
hitselectionPval | 0.044 | 0.000 | 0.044 | |
hitselectionZscore | 0.036 | 0.004 | 0.043 | |
hitselectionZscorePval | 0.044 | 0.000 | 0.045 | |
incorporatepValVec | 0.048 | 0.000 | 0.047 | |
indexSubset | 0.004 | 0.000 | 0.005 | |
joinDatasetFiles | 0.020 | 0.000 | 0.022 | |
joinDatasets | 0.004 | 0.004 | 0.006 | |
lowessNorm | 0.016 | 0.004 | 0.019 | |
mainAnalysis | 36.867 | 0.432 | 42.016 | |
makeBoxplot4PlateType | 0.056 | 0.004 | 0.060 | |
makeBoxplotControls | 0.036 | 0.000 | 0.035 | |
makeBoxplotControlsPerPlate | 0.116 | 0.004 | 0.117 | |
makeBoxplotControlsPerScreen | 0.068 | 0.000 | 0.069 | |
makeBoxplotPerPlate | 0.056 | 0.004 | 0.059 | |
makeBoxplotPerScreen | 0.032 | 0.000 | 0.034 | |
multTestAdjust | 0.000 | 0.004 | 0.005 | |
numCellQualControl | 0.040 | 0.000 | 0.038 | |
orderGeneIDs | 0.128 | 0.004 | 0.133 | |
percCellQualControl | 0.024 | 0.012 | 0.036 | |
plotBar | 0.152 | 0.000 | 0.156 | |
plotControlHisto | 0.088 | 0.000 | 0.087 | |
plotControlHistoPerplate | 0.388 | 0.000 | 0.389 | |
plotControlHistoPerscreen | 0.196 | 0.000 | 0.196 | |
plotHisto | 0.020 | 0.004 | 0.023 | |
plotHistoPerplate | 0.076 | 0.012 | 0.086 | |
plotHistoPerscreen | 0.044 | 0.004 | 0.045 | |
plotQQ | 0.032 | 0.000 | 0.032 | |
plotQQperplate | 0.088 | 0.004 | 0.092 | |
plotQQperscreen | 0.052 | 0.000 | 0.054 | |
quantileNormalization | 0.036 | 0.000 | 0.035 | |
replicatesCV | 0.060 | 0.000 | 0.063 | |
replicatesSpearmancor | 0.040 | 0.000 | 0.042 | |
rms | 0.008 | 0.000 | 0.004 | |
saveDataset | 0.020 | 0.004 | 0.026 | |
saveOldIntensityColumns | 0.004 | 0.000 | 0.005 | |
savepValVec | 0.008 | 0.000 | 0.006 | |
spatialDistrib | 0.636 | 0.004 | 0.640 | |
spatialDistribHits | 0.668 | 0.012 | 0.678 | |
subtractBackground | 0.008 | 0.000 | 0.010 | |
sumChannels | 0.024 | 0.000 | 0.023 | |
summarizeReps | 0.116 | 0.000 | 0.115 | |
summarizeRepsNoFiltering | 0.112 | 0.000 | 0.111 | |
trim | 0.004 | 0.004 | 0.009 | |
varAdjust | 0.016 | 0.000 | 0.015 | |
vennDiag | 0.116 | 0.004 | 0.119 | |
volcanoPlot | 0.068 | 0.004 | 0.075 | |