Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-04-09 11:46:44 -0400 (Tue, 09 Apr 2019).
Package 1315/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
readat 1.9.0 Richard Cotton
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: readat |
Version: 1.9.0 |
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:readat.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings readat_1.9.0.tar.gz |
StartedAt: 2019-04-09 03:07:00 -0400 (Tue, 09 Apr 2019) |
EndedAt: 2019-04-09 03:10:59 -0400 (Tue, 09 Apr 2019) |
EllapsedTime: 239.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: readat.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:readat.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings readat_1.9.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/readat.Rcheck’ * using R Under development (unstable) (2019-03-18 r76245) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘readat/DESCRIPTION’ ... OK * this is package ‘readat’ version ‘1.9.0’ * 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 ‘readat’ 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 ... NOTE sfread: no visible binding for global variable ‘header’ sfread: no visible binding for global variable ‘nrows’ Undefined global functions or variables: header nrows * 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 ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed WideSomaLogicDataAttributes 38.647 0.133 6.368 sub-.WideSomaLogicData 34.975 0.173 6.820 readAdat 34.763 0.117 6.787 colnamesStartWithSeqId 34.512 0.183 6.714 as.SummarizedExperiment 31.861 0.126 6.083 as.ExpressionSet 10.329 0.104 3.118 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.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: 1 NOTE See ‘/home/biocbuild/bbs-3.9-bioc/meat/readat.Rcheck/00check.log’ for details.
readat.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL readat ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘readat’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (readat)
readat.Rcheck/tests/testthat.Rout
R Under development (unstable) (2019-03-18 r76245) -- "Unsuffered Consequences" 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(readat) > library(testthat) > > test_check("readat") ══ testthat results ═══════════════════════════════════════════════════════════ OK: 62 SKIPPED: 0 FAILED: 0 > > proc.time() user system elapsed 145.398 0.978 33.679
readat.Rcheck/readat-Ex.timings
name | user | system | elapsed | |
WideSomaLogicData | 0.017 | 0.008 | 0.025 | |
WideSomaLogicDataAttributes | 38.647 | 0.133 | 6.368 | |
aptamers | 0.404 | 0.004 | 0.408 | |
as.ExpressionSet | 10.329 | 0.104 | 3.118 | |
as.SummarizedExperiment | 31.861 | 0.126 | 6.083 | |
chromosomalPositions | 0.104 | 0.000 | 0.104 | |
colnamesStartWithSeqId | 34.512 | 0.183 | 6.714 | |
convertSeqIdToAptamer | 0 | 0 | 0 | |
ensemblIds | 0.003 | 0.000 | 0.002 | |
extractSampleData | 0.006 | 0.004 | 0.055 | |
getChromosomalPositions | 0.042 | 0.000 | 0.042 | |
getEnsemblIds | 0.003 | 0.000 | 0.003 | |
getGoMolecularFunctions | 0.929 | 0.020 | 0.950 | |
getKeggDefinitions | 0.03 | 0.00 | 0.03 | |
getPfam | 0.012 | 0.000 | 0.013 | |
getUniProtKeywords | 0.023 | 0.000 | 0.023 | |
goMolecularFunction | 0.240 | 0.024 | 0.264 | |
keggDefinitions | 0.041 | 0.000 | 0.041 | |
pfam | 0.015 | 0.000 | 0.015 | |
readAdat | 34.763 | 0.117 | 6.787 | |
readComments | 0.126 | 0.000 | 0.046 | |
readControls | 0.210 | 0.000 | 0.136 | |
readSamples | 0.342 | 0.000 | 0.263 | |
readSlides | 0.124 | 0.000 | 0.069 | |
sub-.WideSomaLogicData | 34.975 | 0.173 | 6.820 | |
uniprotKeywords | 0.024 | 0.000 | 0.024 | |
writeSampleSubmissionForm | 0.397 | 0.000 | 0.142 | |