############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/PhyloProfile_1.8.6.tar.gz && rm -rf PhyloProfile.buildbin-libdir && mkdir PhyloProfile.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PhyloProfile.buildbin-libdir PhyloProfile_1.8.6.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL PhyloProfile_1.8.6.zip && rm PhyloProfile_1.8.6.tar.gz PhyloProfile_1.8.6.zip ### ############################################################################## ############################################################################## % 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 504k 100 504k 0 0 676k 0 --:--:-- --:--:-- --:--:-- 677k install for i386 * installing *source* package 'PhyloProfile' ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'PhyloProfile' finding HTML links ... done calcPresSpec html checkInputValidity html checkNewick html checkOmaID html clusterDataDend html compareMedianTaxonGroups html compareTaxonGroups html createArchiPlot html createGeneAgePlot html createLongMatrix html createPercentageDistributionData html createProfileFromOma html createRootedTree html createVarDistPlot html createVariableDistributionData html createVariableDistributionDataSubset html dataCustomizedPlot html dataFeatureTaxGroup html dataMainPlot html dataVarDistTaxGroup html distributionTest html estimateGeneAge html fastaParser html featureDistTaxPlot html filterProfileData html filteredProfile html finalProcessedProfile html fromInputToProfile html fullProcessedProfile html geneAgePlotDf html generateSinglePlot html getAllDomainsOma html getAllFastaOma html getCommonAncestor html getCoreGene html getDataClustering html getDataForOneOma html getDendrogram html getDistanceMatrix html getDomainFolder html getFastaFromFasInput html getFastaFromFile html getFastaFromFolder html getIDsRank html getInputTaxaID html getInputTaxaName html getNameList html getOmaDataForOneOrtholog html getOmaDomainFromURL html getOmaMembers html getQualColForVector html getSelectedFastaOma html getSelectedTaxonNames html getTaxonomyInfo html getTaxonomyMatrix html getTaxonomyRanks html gridArrangeSharedLegend html heatmapPlotting html highlightProfilePlot html idList html mainLongRaw html mainTaxonomyRank html pairDomainPlotting html parseDomainInput html parseInfoProfile html ppTaxonomyMatrix html ppTree html processNcbiTaxonomy html profileWithTaxonomy html qualitativeColours html rankIndexing html rankList html reduceProfile html runPhyloProfile html singleDomainPlotting html sortDomains html sortInputTaxa html sortTaxaFromTree html superTaxonProfile html taxa2dist html taxonNamesReduced html taxonomyMatrix html taxonomyTableCreator html varDistTaxPlot html wideToLong html xmlParser 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 'PhyloProfile' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'PhyloProfile' as PhyloProfile_1.8.6.zip * DONE (PhyloProfile) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'PhyloProfile' successfully unpacked and MD5 sums checked