Fabian Mueller
| Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019) |
| URL: https://git.bioconductor.org/packages/RnBeads |
| Branch: RELEASE_3_8 |
| Last Commit: 1e73169 |
| Last Changed Date: 2019-01-04 13:17:35 -0400 (Fri, 04 Jan 2019) |
| Back to Multiple platform build/check report for BioC 3.8 |
|
This page was generated on 2019-04-13 11:25:18 -0400 (Sat, 13 Apr 2019).
| Package 1334/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| RnBeads 2.0.1 Fabian Mueller
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: RnBeads |
| Version: 2.0.1 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/RnBeads_2.0.1.tar.gz && rm -rf RnBeads.buildbin-libdir && mkdir RnBeads.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RnBeads.buildbin-libdir RnBeads_2.0.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL RnBeads_2.0.1.zip && rm RnBeads_2.0.1.tar.gz RnBeads_2.0.1.zip |
| StartedAt: 2019-04-12 20:33:17 -0400 (Fri, 12 Apr 2019) |
| EndedAt: 2019-04-12 20:37:19 -0400 (Fri, 12 Apr 2019) |
| EllapsedTime: 242.0 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/RnBeads_2.0.1.tar.gz && rm -rf RnBeads.buildbin-libdir && mkdir RnBeads.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RnBeads.buildbin-libdir RnBeads_2.0.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL RnBeads_2.0.1.zip && rm RnBeads_2.0.1.tar.gz RnBeads_2.0.1.zip
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install for i386
* installing *source* package 'RnBeads' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'RnBeads'
finding HTML links ... done
BMIQ html
ClusterArchitecture-class html
ClusterArchitectureSGE-class html
M-methods html
Report-class html
ReportGgPlot-class html
ReportPlot-class html
RnBClusterRun-class html
RnBDiffMeth-class html
RnBSet-class html
RnBeadClustering-class html
RnBeadRawSet-class html
RnBeadSet-class html
RnBeads html
RnBeads.data html
RnBiseqSet-class html
U-methods html
accepted html
addDiffMethTable-RnBDiffMeth-methods html
addPheno-RnBSet-methods html
addRegionSubsegments html
annotation-methods html
apply.iEVORA html
as.RnBeadRawSet html
assembly-methods html
auto.select.rank.cut html
coercion-methods html
finding level-2 HTML links ... done
cols.to.rank html
combine-methods html
combine.diffMeth.objs html
combineTestPvalsMeth html
computeDiffTab.region html
computeDiffTab.site html
covg-methods html
create.densityScatter html
create.hex.summary.plot html
create.scatter.dens.points html
createReport html
createReportGgPlot html
createReportPlot html
data.frame2GRanges html
densRanks html
destroy-RnBDiffMeth-methods html
destroy-methods html
deviation.plot.beta html
diffVar html
dim-BigFfMat-method html
downloadLolaDbs html
dpval-methods html
estimateProportionsCP html
exportDMRs2regionFile html
get.adjustment.variables html
get.comparison.grouplabels-RnBDiffMeth-methods
html
get.comparison.groupsizes-RnBDiffMeth-methods
html
get.comparison.info html
get.comparisons-RnBDiffMeth-methods html
get.covariates.ct html
get.covariates.sva html
get.covg.thres-RnBDiffMeth-methods html
get.cpg.stats html
get.files html
get.region.types-RnBDiffMeth-methods html
get.site.test.method-RnBDiffMeth-methods
html
get.table-RnBDiffMeth-methods html
get.table.ids html
get.variability.method-RnBDiffMeth-methods
html
getCellTypesFromLolaDb html
getExecutable-ClusterArchitecture-methods
html
getModuleNumCores-RnBClusterRun-methods
html
getNamesFromLolaDb html
getNumNaMeth-methods html
getSubCmdStr-ClusterArchitecture-methods
html
getSubCmdTokens-ClusterArchitecture-methods
html
getSubCmdTokens-ClusterArchitectureSGE-methods
html
getTargetFromLolaDb html
greedycut.filter.matrix html
greedycut.get.statistics html
greedycut.get.submatrix html
has.covariates.ct html
has.covariates.sva html
hasCovg-methods html
includes.sites-RnBDiffMeth-methods html
initialize-ClusterArchitecture-method html
initialize-ClusterArchitectureSGE-method
html
initialize-RnBClusterRun-method html
initialize-RnBDiffMeth-method html
intensities.by.color html
is.valid-RnBDiffMeth-methods html
isImputed-RnBSet-method html
join.diffMeth-methods html
limmaP html
load.region.subsegment.annotation html
load.rnb.diffmeth html
load.rnb.set html
loadLolaDbs html
logger.argument html
logger.getfiles html
logger.isinitialized html
logger.machine.name html
logger.validate.file html
loggerManagement html
loggerMessages html
lolaBarPlot html
lolaBoxPlotPerTarget html
lolaVolcanoPlot html
lump.hg19 html
lump.hg38 html
mask.sites.meth-methods html
mergeSamples-methods html
meth-methods html
mval-methods html
nsites-methods html
off-methods html
parallel.getNumWorkers html
parallel.isEnabled html
parallel.setup html
parallel.teardown html
performGOEnrichment.diffVar html
performGOenrichment.diffMeth.entrez html
performGoEnrichment.diffMeth html
performLolaEnrichment.diffMeth html
performLolaEnrichment.diffVar html
pheno-methods html
prepareSOFTfileForGEO html
qc-methods html
read.GS.report html
read.bed.files html
read.data.dir html
read.idat.files html
read.idat.files2 html
read.sample.annotation html
read.single.bed html
refFreeEWASP html
regionMapping-methods html
regions-methods html
reload-RnBDiffMeth-methods html
remove.regions-methods html
remove.samples-methods html
remove.sites-methods html
rnb.RnBSet.to.GRangesList html
rnb.RnBSet.to.bed html
rnb.RnBSet.to.bedGraph html
rnb.add.figure html
rnb.add.list html
rnb.add.paragraph html
rnb.add.reference html
rnb.add.section html
rnb.add.table html
rnb.add.tables html
rnb.annotation.size html
rnb.annotation2data.frame html
rnb.beta2mval html
rnb.build.index html
rnb.call.destructor html
rnb.color.legends html
rnb.combine.arrays html
rnb.combine.seq html
rnb.execute.age.prediction html
rnb.execute.batch.qc html
rnb.execute.batcheffects html
rnb.execute.clustering html
rnb.execute.clustering.all html
rnb.execute.computeDiffMeth html
rnb.execute.context.removal html
rnb.execute.cross.reactive.removal html
rnb.execute.ct.estimation html
rnb.execute.diffVar html
rnb.execute.dreduction html
rnb.execute.export.csv html
rnb.execute.filter.summary html
rnb.execute.gender.prediction html
rnb.execute.genomewide html
rnb.execute.greedycut html
rnb.execute.high.coverage.removal html
rnb.execute.import html
rnb.execute.imputation html
rnb.execute.low.coverage.masking html
rnb.execute.lump html
rnb.execute.na.removal html
rnb.execute.normalization html
rnb.execute.quality html
rnb.execute.sex.prediction html
rnb.execute.sex.removal html
rnb.execute.snp.removal html
rnb.execute.sva html
rnb.execute.tnt html
rnb.execute.training html
rnb.execute.variability.removal html
rnb.export.all.annotation html
rnb.export.annotation html
rnb.export.to.ewasher html
rnb.export.to.trackhub html
rnb.find.relative.site.coord html
rnb.get.annotation html
rnb.get.assemblies html
rnb.get.chromosomes html
rnb.get.directory html
rnb.get.mapping html
rnb.get.reference html
rnb.get.reliability.matrix html
rnb.infinium.control.targets html
rnb.initialize.reports html
rnb.is.option html
rnb.load.annotation html
rnb.load.annotation.from.db html
rnb.load.sitelist html
rnb.message.plot html
rnb.mval2beta html
rnb.options html
rnb.options2xml html
rnb.performance.profile html
rnb.plot.beta.comparison html
rnb.plot.betadistribution.probeCategories
html
rnb.plot.betadistribution.sampleGroups
html
rnb.plot.biseq.coverage html
rnb.plot.biseq.coverage.hist html
rnb.plot.biseq.coverage.violin html
rnb.plot.control.barplot html
rnb.plot.control.boxplot html
rnb.plot.coverage.thresholds html
rnb.plot.ct.heatmap html
rnb.plot.dreduction html
rnb.plot.locus.profile html
rnb.plot.marker.fstat html
rnb.plot.negative.boxplot html
rnb.plot.num.sites.covg html
rnb.plot.pheno.categories html
rnb.plot.region.profile.density html
rnb.plot.region.profiles html
rnb.plot.region.site.density html
rnb.plot.sentrix.distribution html
rnb.plot.sentrix.distributions html
rnb.plot.snp.barplot html
rnb.plot.snp.boxplot html
rnb.plot.snp.heatmap html
rnb.read.geo html
rnb.region.types html
rnb.region.types.for.analysis html
rnb.remove.annotation html
rnb.run.analysis html
rnb.run.dj html
rnb.run.example html
rnb.run.xml html
rnb.runs html
rnb.sample.groups html
rnb.sample.replicates html
rnb.sample.summary.table html
rnb.save.annotation html
rnb.section.diffVar.region html
rnb.set.annotation html
rnb.set.annotation.and.cpg.stats html
rnb.show.report html
rnb.step.betadistribution html
rnb.step.cnv html
rnb.write.table html
rnb.xml2options html
rowOneSampleTP html
rowPairedTP html
rowWelchP html
run-RnBClusterRun-methods html
run.cross.validation html
sampleCovgApply-methods html
sampleMethApply-methods html
samples-methods html
save.rnb.diffmeth html
save.rnb.set html
save.tables-RnBDiffMeth-methods html
set.covariates.ct html
set.covariates.sva html
setExecutable-ClusterArchitecture-methods
html
setModuleNumCores-RnBClusterRun-methods
html
setModuleResourceRequirements-RnBClusterRun-methods
html
sites-methods html
sub-BigFfMat-ANY-ANY-ANY-method html
subset-BigFfMat-ANY-ANY-ANY-method html
summarize.regions-methods html
summarized.regions-methods html
updateMethylationSites-methods html
updateRegionSummaries html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'RnBeads' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'RnBeads' as RnBeads_2.0.1.zip
* DONE (RnBeads)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'RnBeads' successfully unpacked and MD5 sums checked
In R CMD INSTALL