Back to Multiple platform build/check report for BioC 3.8 |
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This page was generated on 2019-04-16 11:49:32 -0400 (Tue, 16 Apr 2019).
Package 172/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
BRAIN 1.28.1 Piotr Dittwald
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | [ WARNINGS ] | |||||||
merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK |
Package: BRAIN |
Version: 1.28.1 |
Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:BRAIN.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings BRAIN_1.28.1.tar.gz |
StartedAt: 2019-04-15 22:34:41 -0400 (Mon, 15 Apr 2019) |
EndedAt: 2019-04-15 22:35:37 -0400 (Mon, 15 Apr 2019) |
EllapsedTime: 56.0 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: BRAIN.Rcheck |
Warnings: 2 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:BRAIN.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings BRAIN_1.28.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.8-bioc/meat/BRAIN.Rcheck’ * using R version 3.5.3 (2019-03-11) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘BRAIN/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘BRAIN’ version ‘1.28.1’ * 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 ‘BRAIN’ 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 ... NOTE Package in Depends field not imported from: ‘Biostrings’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. * 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 ... WARNING Codoc mismatches from documentation object 'calculateIsotopicProbabilities': calculateIsotopicProbabilities Code: function(aC, stopOption = "nrPeaks", nrPeaks = NULL, coverage = NULL, abundantEstim = NULL, approx = FALSE, approxStart = 1, approxParam = NULL) Docs: function(aC, stopOption = "nrPeaks", nrPeaks, coverage, abundantEstim) Argument names in code not in docs: approx approxStart approxParam Mismatches in argument default values: Name: 'nrPeaks' Code: NULL Docs: Name: 'coverage' Code: NULL Docs: Name: 'abundantEstim' Code: NULL Docs: * checking Rd \usage sections ... WARNING Bad \usage lines found in documentation object 'useBRAIN2': useBRAIN2(aC, stopOption = "nrPeaks", nrPeaks, approxStart = 1, approxParam = NULL)) Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. * checking Rd contents ... OK * checking for unstated dependencies in examples ... 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: 2 WARNINGs, 1 NOTE See ‘/home/biocbuild/bbs-3.8-bioc/meat/BRAIN.Rcheck/00check.log’ for details.
BRAIN.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL BRAIN ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’ * installing *source* package ‘BRAIN’ ... ** 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 * DONE (BRAIN)
BRAIN.Rcheck/BRAIN-Ex.timings
name | user | system | elapsed | |
BRAIN-package | 0.260 | 0.004 | 0.267 | |
calculateAverageMass | 0.000 | 0.000 | 0.001 | |
calculateIsotopicProbabilities | 0.012 | 0.004 | 0.016 | |
calculateMonoisotopicMass | 0.000 | 0.000 | 0.001 | |
calculateNrPeaks | 0 | 0 | 0 | |
getAtomsFromSeq | 0.004 | 0.000 | 0.005 | |
useBRAIN | 0.360 | 0.000 | 0.361 | |
useBRAIN2 | 0.192 | 0.000 | 0.195 | |