Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:05:45 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the metabCombiner package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/metabCombiner.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 1077/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
metabCombiner 1.2.2 (landing page) Hani Habra
| 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: metabCombiner |
Version: 1.2.2 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:metabCombiner.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings metabCombiner_1.2.2.tar.gz |
StartedAt: 2021-10-14 10:30:31 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 10:32:26 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 115.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: metabCombiner.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:metabCombiner.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings metabCombiner_1.2.2.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/metabCombiner.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘metabCombiner/DESCRIPTION’ ... OK * this is package ‘metabCombiner’ version ‘1.2.2’ * 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 ‘metabCombiner’ 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK * 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-3.13-bioc/meat/metabCombiner.Rcheck/00check.log’ for details.
metabCombiner.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL metabCombiner ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘metabCombiner’ ... ** using staged installation ** libs gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c binByMZ.c -o binByMZ.o gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c findDuplicates.c -o findDuplicates.o gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c labelRows.c -o labelRows.o gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c metabCombiner_init.c -o metabCombiner_init.o gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c selectAnchors.c -o selectAnchors.o gcc -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c write2file.c -o write2file.o gcc -shared -L/home/biocbuild/bbs-3.13-bioc/R/lib -L/usr/local/lib -o metabCombiner.so binByMZ.o findDuplicates.o labelRows.o metabCombiner_init.o selectAnchors.o write2file.o -L/home/biocbuild/bbs-3.13-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-metabCombiner/00new/metabCombiner/libs ** R ** data ** demo ** 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 ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (metabCombiner)
metabCombiner.Rcheck/tests/testthat.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 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(testthat) > library(metabCombiner) Loading required package: dplyr Attaching package: 'dplyr' The following object is masked from 'package:testthat': matches The following objects are masked from 'package:stats': filter, lag The following objects are masked from 'package:base': intersect, setdiff, setequal, union > > test_check("metabCombiner") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 33 ] > > proc.time() user system elapsed 13.111 0.445 13.547
metabCombiner.Rcheck/metabCombiner-Ex.timings
name | user | system | elapsed | |
adductdata | 0.180 | 0.008 | 0.187 | |
batchCombine | 0 | 0 | 0 | |
calcScores | 1.742 | 0.020 | 1.761 | |
calcScoresParam | 0.001 | 0.000 | 0.001 | |
combinedTable | 0.153 | 0.004 | 0.157 | |
datasets | 0.150 | 0.004 | 0.154 | |
evaluateParams | 3.861 | 0.032 | 3.893 | |
featdata | 0.154 | 0.008 | 0.162 | |
fit_gam | 2.162 | 0.012 | 2.174 | |
fit_loess | 1.346 | 0.008 | 1.353 | |
fitgamParam | 0.001 | 0.000 | 0.000 | |
fitloessParam | 0.001 | 0.000 | 0.000 | |
getAnchors | 0.398 | 0.004 | 0.401 | |
getCoefficients | 1.449 | 0.012 | 1.462 | |
getData | 0.07 | 0.00 | 0.07 | |
getExtra | 0.068 | 0.005 | 0.073 | |
getModel | 0.548 | 0.003 | 0.551 | |
getSamples | 0.324 | 0.008 | 0.332 | |
getStats | 1.230 | 0.014 | 1.245 | |
iddata | 0.152 | 0.004 | 0.157 | |
labelRows | 1.927 | 0.012 | 1.940 | |
labelRowsParam | 0.000 | 0.000 | 0.001 | |
metabCombine | 0 | 0 | 0 | |
metabCombiner | 0.304 | 0.016 | 0.320 | |
metabData | 0.130 | 0.000 | 0.129 | |
nonmatched | 0.153 | 0.000 | 0.153 | |
plot_fit | 0.547 | 0.020 | 0.566 | |
rtdata | 0.152 | 0.008 | 0.160 | |
selectAnchors | 0.566 | 0.000 | 0.565 | |
selectAnchorsParam | 0.000 | 0.001 | 0.001 | |
write2file | 1.815 | 0.014 | 1.830 | |