Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:05:44 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the mdqc package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mdqc.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 1058/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
mdqc 1.54.0 (landing page) Gabriela Cohen-Freue
| 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: mdqc |
Version: 1.54.0 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:mdqc.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings mdqc_1.54.0.tar.gz |
StartedAt: 2021-10-14 10:28:01 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 10:28:19 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 17.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: mdqc.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:mdqc.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings mdqc_1.54.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/mdqc.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 ‘mdqc/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘mdqc’ version ‘1.54.0’ * 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 ‘mdqc’ 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 ... NOTE Found the following apparent S3 methods exported but not registered: prcomp.robust See section ‘Registering S3 methods’ in the ‘Writing R Extensions’ manual. * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE Tbsb: no visible global function definition for ‘pchisq’ Tbsc: no visible global function definition for ‘qchisq’ ksiint: no visible global function definition for ‘pgamma’ mdqc: no visible global function definition for ‘as.dist’ mdqc: no visible global function definition for ‘mahalanobis’ mySm: no visible global function definition for ‘var’ mySm: no visible global function definition for ‘mahalanobis’ plot.mdqc: no visible global function definition for ‘par’ plot.mdqc: no visible global function definition for ‘abline’ plot.mdqc: no visible global function definition for ‘qchisq’ plot.mdqc: no visible global function definition for ‘points’ plot.mdqc: no visible global function definition for ‘text’ print.mdqc: no visible global function definition for ‘qchisq’ summary.mdqc: no visible global function definition for ‘qchisq’ Undefined global functions or variables: abline as.dist mahalanobis par pchisq pgamma points qchisq text var Consider adding importFrom("graphics", "abline", "par", "points", "text") importFrom("stats", "as.dist", "mahalanobis", "pchisq", "pgamma", "qchisq", "var") to your NAMESPACE file. * 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 ... NOTE S3 methods shown with full name in documentation object 'prcomp.robust': ‘prcomp.robust’ The \usage entries for S3 methods should use the \method markup and not their full name. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. * 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 * 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: 3 NOTEs See ‘/home/biocbuild/bbs-3.13-bioc/meat/mdqc.Rcheck/00check.log’ for details.
mdqc.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL mdqc ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘mdqc’ ... ** using staged installation ** R ** data ** 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 (mdqc)
mdqc.Rcheck/mdqc-Ex.timings
name | user | system | elapsed | |
allQC | 0.013 | 0.001 | 0.012 | |
mdqc | 1.484 | 0.009 | 1.493 | |
plot.mdqc | 0.355 | 0.001 | 0.355 | |
prcomp.robust | 0.272 | 0.000 | 0.272 | |