Back to Build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-03-01 07:38:35 -0000 (Wed, 01 Mar 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4266 |
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To the developers/maintainers of the attract package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/attract.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 96/2171 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
attract 1.51.0 (landing page) Samuel Zimmerman
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
Package: attract |
Version: 1.51.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:attract.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings attract_1.51.0.tar.gz |
StartedAt: 2023-02-27 20:52:45 -0000 (Mon, 27 Feb 2023) |
EndedAt: 2023-02-27 21:08:09 -0000 (Mon, 27 Feb 2023) |
EllapsedTime: 924.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: attract.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:attract.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings attract_1.51.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/attract.Rcheck’ * using R Under development (unstable) (2023-01-14 r83615) * using platform: aarch64-unknown-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 * running under: Ubuntu 22.04.1 LTS * using session charset: UTF-8 * checking for file ‘attract/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘attract’ version ‘1.51.0’ * 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 ‘attract’ 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 plotsynexprs: warning in axis(1, at = tickMarks, lab = tickLabels): partial argument match of 'lab' to 'labels' removeFlatGenes: warning in topTable(fit2, coef = (1:(length(my.contrasts))), adjust = "fdr", n = nrow(dat.fr)): partial argument match of 'n' to 'number' removeFlatGenes: warning in topTable(fit2, coef = (1:(length(my.contrasts))), adjust = "fdr", n = nrow(dat.fr)): partial argument match of 'adjust' to 'adjust.method' * 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 (user + system) or elapsed time > 5s user system elapsed calcFuncSynexprs 131.885 11.887 144.436 findAttractors 56.063 2.648 59.233 findCorrPartners 14.521 0.128 14.880 findSynexprs 6.452 0.132 6.747 plotsynexprs 6.393 0.088 6.632 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... ‘attract.Rnw’... OK OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.17-bioc/meat/attract.Rcheck/00check.log’ for details.
attract.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL attract ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’ * installing *source* package ‘attract’ ... ** using staged installation ** R ** data ** 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 (attract)
attract.Rcheck/attract-Ex.timings
name | user | system | elapsed | |
AttractorModuleSet-class | 0 | 0 | 0 | |
SynExpressionSet-class | 0.000 | 0.000 | 0.001 | |
attract-package | 0 | 0 | 0 | |
buildCorMatrix | 0.001 | 0.000 | 0.000 | |
buildKeggIncidenceMatrix | 0 | 0 | 0 | |
calcFuncSynexprs | 131.885 | 11.887 | 144.436 | |
calcInform | 0.001 | 0.000 | 0.000 | |
calcModfstat | 0.001 | 0.000 | 0.000 | |
calcRss | 0 | 0 | 0 | |
exprs.dat | 0.106 | 0.016 | 0.122 | |
filterDataSet | 0.243 | 0.016 | 0.259 | |
findAttractors | 56.063 | 2.648 | 59.233 | |
findCorrPartners | 14.521 | 0.128 | 14.880 | |
findOnepwaySynexprs | 0 | 0 | 0 | |
findSynexprs | 6.452 | 0.132 | 6.747 | |
flagPwayExists | 0 | 0 | 0 | |
getCustomGenes | 0 | 0 | 0 | |
getPwayGenes | 0 | 0 | 0 | |
loring.eset | 0.119 | 0.000 | 0.119 | |
plotsynexprs | 6.393 | 0.088 | 6.632 | |
removeFlatGenes | 0.149 | 0.000 | 0.149 | |
samp.info | 0.001 | 0.001 | 0.002 | |
subset.loring.eset | 0.061 | 0.002 | 0.063 | |