############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf singleCellTK.buildbin-libdir && mkdir singleCellTK.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=singleCellTK.buildbin-libdir singleCellTK_2.2.0.tar.gz ### ############################################################################## ############################################################################## install for i386 * installing *source* package 'singleCellTK' ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** exec ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'singleCellTK' finding HTML links ... done MitoGenes html SEG html calcEffectSizes html combineSCE html computeHeatmap html computeZScore html constructSCE html convertGeneIDs html finding level-2 HTML links ... done convertSCEToSeurat html convertSeuratToSCE html dataAnnotationColor html dedupRowNames html diffAbundanceFET html discreteColorPalette html distinctColors html dot-addSeuratToMetaDataSCE html dot-checkDiffExpResultExists html dot-computeSignificantPC html dot-extractSCEAnnotation html dot-formatDEAList html dot-getComponentNames html dot-ggBar html dot-ggDensity html dot-ggScatter html dot-ggViolin html dot-sce2adata html dot-seuratGetVariableFeatures html dot-seuratInvalidate html dot-updateAssaySCE html downSampleCells html downSampleDepth html enrichRSCE html expData-ANY-character-method html expData-set-ANY-character-CharacterOrNullOrMissing-logical-method html expData-set html expData html expDataNames-ANY-method html expDataNames html expDeleteDataTag html expSetDataTag html expTaggedData html exportSCE html exportSCEToSeurat html exportSCEtoAnnData html exportSCEtoFlatFile html featureIndex html findMarkerDiffExp html generateMeta html generateSimulatedData html getBiomarker html getMSigDBTable html getSceParams html getTSNE html getTopHVG html getUMAP html gsvaSCE html importAlevin html importAnnData html importBUStools html importCellRanger html importCellRangerV2Sample html importCellRangerV3Sample html importDropEst html importExampleData html importFromFiles html importGeneSetsFromCollection html importGeneSetsFromGMT html importGeneSetsFromList html importGeneSetsFromMSigDB html importMitoGeneSet html importMultipleSources html importOptimus html importSEQC html importSTARsolo html iterateSimulations html mergeSCEColData html mouseBrainSubsetSCE html msigdb_table html plotBarcodeRankDropsResults html plotBarcodeRankScatter html plotBatchVariance html plotBcdsResults html plotBiomarker html plotClusterAbundance html plotCxdsResults html plotDEGHeatmap html plotDEGRegression html plotDEGViolin html plotDecontXResults html plotDimRed html plotDoubletFinderResults html plotEmptyDropsResults html plotEmptyDropsScatter html plotHeatmapMulti html plotMASTThresholdGenes html plotMarkerDiffExp html plotPCA html plotRunPerCellQCResults html plotSCEBarAssayData html plotSCEBarColData html plotSCEBatchFeatureMean html plotSCEDensity html plotSCEDensityAssayData html plotSCEDensityColData html plotSCEDimReduceColData html plotSCEDimReduceFeatures html plotSCEHeatmap html plotSCEScatter html plotSCEViolin html plotSCEViolinAssayData html plotSCEViolinColData html plotScDblFinderResults html plotScdsHybridResults html plotScrubletResults html plotTSNE html plotTopHVG html plotUMAP html qcInputProcess html readSingleCellMatrix html reportCellQC html reportDiffExp html reportDropletQC html reportFindMarker html reportQCTool html retrieveSCEIndex html runANOVA html runBBKNN html runBarcodeRankDrops html runBcds html runCellQC html runComBatSeq html runCxds html runCxdsBcdsHybrid html runDEAnalysis html runDESeq2 html runDecontX html runDimensionalityReduction html runDoubletFinder html runDropletQC html runEmptyDrops html runFastMNN html runFeatureSelection html runKMeans html runLimmaBC html runLimmaDE html runMAST html runMNNCorrect html runNormalization html runPerCellQC html runSCANORAMA html runSCMerge html runScDblFinder html runScranSNN html runScrublet html runSingleR html runWilcox html runZINBWaVE html sampleSummaryStats html scaterCPM html scaterPCA html scaterlogNormCounts html sce html sceBatches html scranModelGeneVar html sctkListGeneSetCollections html sctkPythonInstallConda html sctkPythonInstallVirtualEnv html selectSCTKConda html selectSCTKVirtualEnvironment html setSCTKDisplayRow html seuratComputeHeatmap html seuratComputeJackStraw html seuratElbowPlot html seuratFindClusters html seuratFindHVG html seuratFindMarkers html seuratGenePlot html seuratHeatmapPlot html seuratICA html seuratIntegration html seuratJackStrawPlot html seuratNormalizeData html seuratPCA html seuratPlotHVG html seuratReductionPlot html seuratReport html seuratRunTSNE html seuratRunUMAP html seuratSCTransform html seuratScaleData html seuratVariableFeatures html simpleLog html singleCellTK html subDiffEx html subsetSCECols html subsetSCERows html summarizeSCE html trimCounts html visPlot html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'singleCellTK' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'singleCellTK' as singleCellTK_2.2.0.zip * DONE (singleCellTK)