Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:20 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the RPA package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RPA.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1624/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
RPA 1.48.0 (landing page) Leo Lahti
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: RPA |
Version: 1.48.0 |
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:RPA.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings RPA_1.48.0.tar.gz |
StartedAt: 2021-10-15 04:49:20 -0400 (Fri, 15 Oct 2021) |
EndedAt: 2021-10-15 04:52:57 -0400 (Fri, 15 Oct 2021) |
EllapsedTime: 216.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RPA.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:RPA.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings RPA_1.48.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/RPA.Rcheck' * using R version 4.1.1 (2021-08-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'RPA/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'RPA' version '1.48.0' * package encoding: UTF-8 * 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 'RPA' 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 ... OK * 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 ... 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 for unstated dependencies in examples ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'rpa.R' OK ** running tests for arch 'x64' ... Running 'rpa.R' OK * 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: OK
RPA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/RPA_1.48.0.tar.gz && rm -rf RPA.buildbin-libdir && mkdir RPA.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RPA.buildbin-libdir RPA_1.48.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL RPA_1.48.0.zip && rm RPA_1.48.0.tar.gz RPA_1.48.0.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 123k 100 123k 0 0 547k 0 --:--:-- --:--:-- --:--:-- 550k install for i386 * installing *source* package 'RPA' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'RPA' finding HTML links ... done RPA-package html RPA.iteration html RPA.preprocess html calculate.rpa html collect.hyperparameters html d.update.fast html estimate.affinities html estimate.hyperparameters html frpa html get.batches html get.probe.matrix html get.probe.parameters html get.probeset html hyperparameter.update html levelmap html n.phylotypes.per.oligo html online.quantile html probe.parameters.tolist html probe.performance html probeplot html probetable html retrieve.probesets html rpa html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/RPA.buildbin-libdir/00LOCK-RPA/00new/RPA/help/rpa.html rpa.complete html rpa.fit html rpa.online html rpa.plot html rpa.summarize html rpaplot html sample.probeset html summarize.batch html summarize.batches html summarize.rpa html summarize.sum html summarize_probedata html updating.hyperparameters 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 'RPA' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'RPA' as RPA_1.48.0.zip * DONE (RPA) * installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library' package 'RPA' successfully unpacked and MD5 sums checked
RPA.Rcheck/tests_i386/rpa.Rout R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: i386-w64-mingw32/i386 (32-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(affy) Loading required package: BiocGenerics Loading required package: parallel Attaching package: 'BiocGenerics' The following objects are masked from 'package:parallel': clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which.max, which.min Loading required package: Biobase Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. > library(affydata) Package LibPath Item [1,] "affydata" "C:/Users/biocbuild/bbs-3.13-bioc/R/library" "Dilution" Title [1,] "AffyBatch instance Dilution" > library(RPA) RPA Copyright (C) 2008-2017 Leo Lahti. See http://microbiome.github.io/ > data(Dilution) > eset <- rpa(Dilution) Preprocessing affybatch... Background correcting... Normalizing... Logging PM values... Retrieving probe positions.. ... Preprocessing completed. Setting quantile basis Warning messages: 1: replacing previous import 'AnnotationDbi::tail' by 'utils::tail' when loading 'hgu95av2cdf' 2: replacing previous import 'AnnotationDbi::head' by 'utils::head' when loading 'hgu95av2cdf' > > proc.time() user system elapsed 15.53 0.93 16.45 |
RPA.Rcheck/tests_x64/rpa.Rout R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(affy) Loading required package: BiocGenerics Loading required package: parallel Attaching package: 'BiocGenerics' The following objects are masked from 'package:parallel': clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which.max, which.min Loading required package: Biobase Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. > library(affydata) Package LibPath Item [1,] "affydata" "C:/Users/biocbuild/bbs-3.13-bioc/R/library" "Dilution" Title [1,] "AffyBatch instance Dilution" > library(RPA) RPA Copyright (C) 2008-2017 Leo Lahti. See http://microbiome.github.io/ > data(Dilution) > eset <- rpa(Dilution) Preprocessing affybatch... Background correcting... Normalizing... Logging PM values... Retrieving probe positions.. ... Preprocessing completed. Setting quantile basis Warning messages: 1: replacing previous import 'AnnotationDbi::tail' by 'utils::tail' when loading 'hgu95av2cdf' 2: replacing previous import 'AnnotationDbi::head' by 'utils::head' when loading 'hgu95av2cdf' > > proc.time() user system elapsed 17.57 0.68 18.31 |
RPA.Rcheck/examples_i386/RPA-Ex.timings
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RPA.Rcheck/examples_x64/RPA-Ex.timings
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