Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-10-16 11:57:31 -0400 (Wed, 16 Oct 2019).
Package 1411/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
RPA 1.40.0 Leo Lahti
| 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: RPA |
Version: 1.40.0 |
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:RPA.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings RPA_1.40.0.tar.gz |
StartedAt: 2019-10-16 04:40:12 -0400 (Wed, 16 Oct 2019) |
EndedAt: 2019-10-16 04:42:29 -0400 (Wed, 16 Oct 2019) |
EllapsedTime: 137.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RPA.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:RPA.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings RPA_1.40.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/RPA.Rcheck’ * using R version 3.6.1 (2019-07-05) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘RPA/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘RPA’ version ‘1.40.0’ * 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 for sufficient/correct file permissions ... 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 * 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 ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... 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: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL RPA ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘RPA’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** 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 * DONE (RPA)
RPA.Rcheck/tests/rpa.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes" Copyright (C) 2019 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (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, 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" "/home/biocbuild/bbs-3.9-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 18.882 0.536 19.872
RPA.Rcheck/RPA-Ex.timings
name | user | system | elapsed | |
RPA-package | 0.000 | 0.000 | 0.001 | |
RPA.iteration | 0 | 0 | 0 | |
RPA.preprocess | 0 | 0 | 0 | |
collect.hyperparameters | 0.000 | 0.000 | 0.001 | |
d.update.fast | 0 | 0 | 0 | |
estimate.affinities | 0 | 0 | 0 | |
estimate.hyperparameters | 0 | 0 | 0 | |
frpa | 0.001 | 0.000 | 0.000 | |
get.batches | 0 | 0 | 0 | |
get.probe.matrix | 0 | 0 | 0 | |
get.probe.parameters | 0 | 0 | 0 | |
get.probeset | 0 | 0 | 0 | |
hyperparameter.update | 0.000 | 0.000 | 0.001 | |
online.quantile | 0.000 | 0.000 | 0.001 | |
probe.parameters.tolist | 0.000 | 0.000 | 0.001 | |
probe.performance | 0 | 0 | 0 | |
probeplot | 0 | 0 | 0 | |
probetable | 0 | 0 | 0 | |
retrieve.probesets | 0 | 0 | 0 | |
rpa | 0 | 0 | 0 | |
rpa.complete | 0.000 | 0.000 | 0.001 | |
rpa.fit | 0.000 | 0.000 | 0.001 | |
rpa.online | 0 | 0 | 0 | |
rpa.plot | 0 | 0 | 0 | |
rpa.summarize | 0 | 0 | 0 | |
rpaplot | 0 | 0 | 0 | |
sample.probeset | 0.000 | 0.001 | 0.000 | |
summarize.batch | 0 | 0 | 0 | |
summarize.batches | 0 | 0 | 0 | |
summarize_probedata | 0 | 0 | 0 | |
updating.hyperparameters | 0 | 0 | 0 | |