Back to Build/check report for BioC 3.15 experimental data |
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This page was generated on 2022-02-17 08:36:51 -0500 (Thu, 17 Feb 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" | 1362 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
To the developers/maintainers of the CCl4 package: Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 47/406 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
CCl4 1.33.0 (landing page) Audrey Kauffmann
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | WARNINGS | ||||||||
Package: CCl4 |
Version: 1.33.0 |
Command: /home/biocbuild/bbs-3.15-data-experiment/R/bin/R CMD check --install=check:CCl4.install-out.txt --library=/home/biocbuild/bbs-3.15-data-experiment/R/library --no-vignettes --timings CCl4_1.33.0.tar.gz |
StartedAt: 2022-02-17 07:07:48 -0500 (Thu, 17 Feb 2022) |
EndedAt: 2022-02-17 07:09:43 -0500 (Thu, 17 Feb 2022) |
EllapsedTime: 115.1 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: CCl4.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.15-data-experiment/R/bin/R CMD check --install=check:CCl4.install-out.txt --library=/home/biocbuild/bbs-3.15-data-experiment/R/library --no-vignettes --timings CCl4_1.33.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.15-data-experiment/meat/CCl4.Rcheck’ * using R Under development (unstable) (2022-01-05 r81451) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘CCl4/DESCRIPTION’ ... OK * this is package ‘CCl4’ version ‘1.33.0’ * 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 ‘CCl4’ can be installed ... OK * checking installed package size ... NOTE installed size is 304.2Mb sub-directories of 1Mb or more: data 12.0Mb extdata 292.2Mb * 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 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 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... WARNING Note: significantly better compression could be obtained by using R CMD build --resave-data old_size new_size compress CCl4.RData 9.1Mb 2.1Mb xz CCl4_RGList.RData 2.9Mb 2.0Mb xz * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘validDataFiles.R’ Comparing ‘validDataFiles.Rout’ to ‘validDataFiles.Rout.save’ ...5,19d4 < Attaching package: 'BiocGenerics' < < 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 < 22,31c7,9 < Vignettes contain introductory material; view with < 'browseVignettes()'. To cite Bioconductor, see < 'citation("Biobase")', and for packages 'citation("pkgname")'. < < < Attaching package: 'limma' < < The following object is masked from 'package:BiocGenerics': < < plotMA --- > Vignettes contain introductory material. To view, type > 'openVignette()'. To cite Bioconductor, see > 'citation("Biobase")' and for packages 'citation(pkgname)'. 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: 1 WARNING, 1 NOTE See ‘/home/biocbuild/bbs-3.15-data-experiment/meat/CCl4.Rcheck/00check.log’ for details.
CCl4.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.15-data-experiment/R/bin/R CMD INSTALL CCl4 ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.15-data-experiment/R/library’ * installing *source* package ‘CCl4’ ... ** using staged installation ** data ** inst ** 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 (CCl4)
CCl4.Rcheck/tests/validDataFiles.Rout
R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" Copyright (C) 2022 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("CCl4") Loading required package: Biobase Loading required package: BiocGenerics Attaching package: 'BiocGenerics' 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 Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. Loading required package: limma Attaching package: 'limma' The following object is masked from 'package:BiocGenerics': plotMA > dataPath = system.file("extdata", package="CCl4") > if(setequal(dir(dataPath), + c("251316214319_auto_479-628.gpr", "251316214320_auto_478-629.gpr", + "251316214321_auto_410-592.gpr", "251316214329_auto_429-673.gpr", + "251316214330_auto_457-658.gpr", "251316214331_auto_431-588.gpr", + "251316214332_auto_492-625.gpr", "251316214333_auto_487-712.gpr", + "251316214379_auto_443-617.gpr", "251316214380_auto_493-682.gpr", + "251316214381_auto_497-602.gpr", "251316214382_auto_481-674.gpr", + "251316214384_auto_450-642.gpr", "251316214389_auto_456-694.gpr", + "251316214390_auto_456-718.gpr", "251316214391_auto_475-599.gpr", + "251316214393_auto_460-575.gpr", "251316214394_auto_463-521.gpr", + "samplesInfo.txt", "013162_D_SequenceList_20060815.txt"))) { + cat("Fine.\n") + } else { + cat(sprintf("Contents of %s differs from expectation.\n", dataPath)) + } Fine. > > proc.time() user system elapsed 1.447 0.115 1.547
CCl4.Rcheck/tests/validDataFiles.Rout.save
R version 2.9.0 Under development (unstable) (2009-03-06 r48061) Copyright (C) 2009 The R Foundation for Statistical Computing ISBN 3-900051-07-0 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("CCl4") Loading required package: Biobase Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation(pkgname)'. Loading required package: limma > dataPath = system.file("extdata", package="CCl4") > if(setequal(dir(dataPath), + c("251316214319_auto_479-628.gpr", "251316214320_auto_478-629.gpr", + "251316214321_auto_410-592.gpr", "251316214329_auto_429-673.gpr", + "251316214330_auto_457-658.gpr", "251316214331_auto_431-588.gpr", + "251316214332_auto_492-625.gpr", "251316214333_auto_487-712.gpr", + "251316214379_auto_443-617.gpr", "251316214380_auto_493-682.gpr", + "251316214381_auto_497-602.gpr", "251316214382_auto_481-674.gpr", + "251316214384_auto_450-642.gpr", "251316214389_auto_456-694.gpr", + "251316214390_auto_456-718.gpr", "251316214391_auto_475-599.gpr", + "251316214393_auto_460-575.gpr", "251316214394_auto_463-521.gpr", + "samplesInfo.txt", "013162_D_SequenceList_20060815.txt"))) { + cat("Fine.\n") + } else { + cat(sprintf("Contents of %s differs from expectation.\n", dataPath)) + } Fine. >
CCl4.Rcheck/CCl4-Ex.timings
name | user | system | elapsed | |
CCl4 | 1.152 | 0.040 | 1.191 | |