Lars Kaderali
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/RNAither |
| Branch: RELEASE_3_9 |
| Last Commit: 776c4c6 |
| Last Changed Date: 2019-05-02 11:53:11 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:22:07 -0400 (Wed, 16 Oct 2019).
| Package 1395/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| RNAither 2.32.0 Lars Kaderali
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: RNAither |
| Version: 2.32.0 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:RNAither.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings RNAither_2.32.0.tar.gz |
| StartedAt: 2019-10-16 06:43:02 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 06:49:13 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 370.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: RNAither.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:RNAither.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings RNAither_2.32.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/RNAither.Rcheck'
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'RNAither/DESCRIPTION' ... OK
* this is package 'RNAither' version '2.32.0'
* 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 whether package 'RNAither' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' 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 ... NOTE
Found the following CITATION file in a non-standard place:
inst/extdata/CITATION
Most likely 'inst/CITATION' should be used instead.
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 dependencies in R code ... NOTE
Package in Depends field not imported from: 'RankProd'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
PlotSpatialDistrib: no visible global function definition for
'brewer.pal'
RankProduct: no visible global function definition for 'RP'
compareReplicateSD: no visible global function definition for
'brewer.pal'
compareReplicateSDPerScreen: no visible global function definition for
'brewer.pal'
spatialDistrib: no visible global function definition for 'brewer.pal'
Undefined global functions or variables:
RP brewer.pal
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
mainAnalysis 15.80 2.75 31.14
rnaither 11.59 3.44 22.83
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
mainAnalysis 15.07 3.26 30.75
rnaither 10.94 3.27 24.39
gseaAnalysis 4.64 0.03 5.58
* 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 3 NOTEs
See
'C:/Users/biocbuild/bbs-3.9-bioc/meat/RNAither.Rcheck/00check.log'
for details.
RNAither.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/RNAither_2.32.0.tar.gz && rm -rf RNAither.buildbin-libdir && mkdir RNAither.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RNAither.buildbin-libdir RNAither_2.32.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL RNAither_2.32.0.zip && rm RNAither_2.32.0.tar.gz RNAither_2.32.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 730k 100 730k 0 0 10.5M 0 --:--:-- --:--:-- --:--:-- 11.8M
install for i386
* installing *source* package 'RNAither' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built.
** help
*** installing help indices
converting help for package 'RNAither'
finding HTML links ... done
BScore html
DRQualControl html
LiWongRank html
MannWhitney html
RNAither-package html
RankProduct html
SNRQualControl html
Ttest html
ZPRIMEQualControl html
ZScore html
ZScorePerScreen html
ZScorePlot html
ZScorePlotTwo html
channelPlot html
closestToZero html
compareHits html
compareReplicaPlates html
compareReplicateSD html
compareReplicateSDPerScreen html
compareReplicates html
controlDensity html
controlDensityPerPlate html
controlDensityPerScreen html
controlNorm html
createSubset html
dataset html
datasetDrosophila html
discardLabtek html
discardWells html
divNorm html
divideChannels html
eraseDataSetColumn html
findReplicates html
furthestFromZero html
generateDatasetFile html
generateRepMatNoFilter html
generateReplicateMat html
gseaAnalysis html
header html
headerDrosophila html
hitselectionPval html
hitselectionZscore html
hitselectionZscorePval html
incorporatepValVec html
indexSubset html
joinDatasetFiles html
joinDatasets html
lowessNorm html
mainAnalysis html
makeBoxplot4PlateType html
makeBoxplotControls html
makeBoxplotControlsPerPlate html
makeBoxplotControlsPerScreen html
makeBoxplotPerPlate html
makeBoxplotPerScreen html
multTestAdjust html
numCellQualControl html
orderGeneIDs html
pValVec1 html
pValVec2 html
percCellQualControl html
plotBar html
plotControlHisto html
plotControlHistoPerplate html
plotControlHistoPerscreen html
plotHisto html
plotHistoPerplate html
plotHistoPerscreen html
plotQQ html
plotQQperplate html
plotQQperscreen html
quantileNormalization html
replicatesCV html
replicatesSpearmancor html
rms html
rnaither html
saveDataset html
saveOldIntensityColumns html
savepValVec html
scoredDataset1 html
scoredDataset2 html
spatialDistrib html
spatialDistribHits html
subtractBackground html
sumChannels html
summarizeReps html
summarizeRepsNoFiltering html
trim html
varAdjust html
vennDiag html
volcanoPlot html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built.
** testing if installed package can be loaded from final location
groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built.
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'RNAither' ...
** testing if installed package can be loaded
groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built.
* MD5 sums
packaged installation of 'RNAither' as RNAither_2.32.0.zip
* DONE (RNAither)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'RNAither' successfully unpacked and MD5 sums checked
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RNAither.Rcheck/examples_i386/RNAither-Ex.timings
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RNAither.Rcheck/examples_x64/RNAither-Ex.timings
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