Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:36 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the frma package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/frma.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 677/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
frma 1.44.0 (landing page) Matthew N. McCall
| 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: frma |
Version: 1.44.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:frma.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings frma_1.44.0.tar.gz |
StartedAt: 2021-10-14 19:11:35 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 19:15:44 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 249.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: frma.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:frma.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings frma_1.44.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/frma.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘frma/DESCRIPTION’ ... OK * this is package ‘frma’ version ‘1.44.0’ * 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 ... NOTE Found the following hidden files and directories: .git_fetch_output.txt .git_merge_output.txt These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘frma’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE Package listed in more than one of Depends, Imports, Suggests, Enhances: ‘Biobase’ A package should be listed in only one of these fields. * 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 GNUSE: no visible binding for global variable ‘median’ GNUSE: no visible binding for global variable ‘quantile’ GNUSE: no visible global function definition for ‘boxplot’ barcode: no visible global function definition for ‘pnorm’ batchFit: no visible global function definition for ‘median’ coerce<-,frmaExpressionSet-ExpressionSet: no visible global function definition for ‘slot<-’ coerce<-,frmaExpressionSet-ExpressionSet: no visible global function definition for ‘slot’ randomeffects<-,frmaExpressionSet: no visible global function definition for ‘validObject’ residuals<-,frmaExpressionSet: no visible global function definition for ‘validObject’ se.exprs<-,ExpressionSet: no visible global function definition for ‘validObject’ se.exprs<-,frmaExpressionSet: no visible global function definition for ‘validObject’ weights<-,frmaExpressionSet: no visible global function definition for ‘validObject’ Undefined global functions or variables: boxplot median pnorm quantile slot slot<- validObject Consider adding importFrom("graphics", "boxplot") importFrom("methods", "slot", "slot<-", "validObject") importFrom("stats", "median", "pnorm", "quantile") to your NAMESPACE file (and ensure that your DESCRIPTION Imports field contains 'methods'). * 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 sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed GNUSE 16.655 2.718 19.390 barcode 10.733 2.838 13.622 frma 10.313 2.741 13.063 * 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 ‘/Users/biocbuild/bbs-3.13-bioc/meat/frma.Rcheck/00check.log’ for details.
frma.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL frma ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘frma’ ... ** using staged installation ** R ** 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 (frma)
frma.Rcheck/frma-Ex.timings
name | user | system | elapsed | |
GNUSE | 16.655 | 2.718 | 19.390 | |
barcode | 10.733 | 2.838 | 13.622 | |
frma | 10.313 | 2.741 | 13.063 | |
frmaExpressionSet-class | 0.109 | 0.000 | 0.110 | |