Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-04-09 11:40:00 -0400 (Tue, 09 Apr 2019).
Package 1034/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
MSGFplus 1.17.1 Thomas Lin Pedersen
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: MSGFplus |
Version: 1.17.1 |
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:MSGFplus.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings MSGFplus_1.17.1.tar.gz |
StartedAt: 2019-04-09 02:12:02 -0400 (Tue, 09 Apr 2019) |
EndedAt: 2019-04-09 02:12:49 -0400 (Tue, 09 Apr 2019) |
EllapsedTime: 47.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: MSGFplus.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:MSGFplus.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings MSGFplus_1.17.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/MSGFplus.Rcheck’ * using R Under development (unstable) (2019-03-18 r76245) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘MSGFplus/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘MSGFplus’ version ‘1.17.1’ * 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 ‘MSGFplus’ 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 Namespace in Imports field not imported from: ‘ProtGenerics’ All declared Imports should be used. * 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 files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘test-all.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-3.9-bioc/meat/MSGFplus.Rcheck/00check.log’ for details.
MSGFplus.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL MSGFplus ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘MSGFplus’ ... ** 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 (MSGFplus)
MSGFplus.Rcheck/tests/test-all.Rout
R Under development (unstable) (2019-03-18 r76245) -- "Unsuffered Consequences" Copyright (C) 2019 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) > test_check('MSGFplus') Loading required package: MSGFplus Attaching package: 'MSGFplus' The following object is masked from 'package:testthat': matches ══ testthat results ═══════════════════════════════════════════════════════════ OK: 169 SKIPPED: 0 FAILED: 0 > > proc.time() user system elapsed 1.699 0.105 2.007
MSGFplus.Rcheck/MSGFplus-Ex.timings
name | user | system | elapsed | |
chargeRange | 0.004 | 0.000 | 0.004 | |
db | 0.002 | 0.000 | 0.002 | |
enzyme | 0.010 | 0.000 | 0.009 | |
fragmentation | 0.002 | 0.004 | 0.006 | |
getMSGFpar | 0.008 | 0.000 | 0.008 | |
instrument | 0.006 | 0.000 | 0.005 | |
isotopeError | 0.002 | 0.000 | 0.003 | |
lengthRange | 0.002 | 0.000 | 0.003 | |
matches | 0.002 | 0.000 | 0.002 | |
mods | 0.004 | 0.000 | 0.004 | |
msgfAsync-class | 0.001 | 0.000 | 0.000 | |
msgfPar-class | 0.007 | 0.000 | 0.007 | |
msgfPar | 0.020 | 0.004 | 0.024 | |
msgfParChargeRange-class | 0 | 0 | 0 | |
msgfParEnzyme-class | 0.003 | 0.000 | 0.003 | |
msgfParFragmentation-class | 0.003 | 0.000 | 0.003 | |
msgfParFromID | 0 | 0 | 0 | |
msgfParGUI | 0 | 0 | 0 | |
msgfParInstrument-class | 0.003 | 0.000 | 0.004 | |
msgfParIsotopeError-class | 0.000 | 0.000 | 0.001 | |
msgfParLengthRange-class | 0 | 0 | 0 | |
msgfParMatches-class | 0 | 0 | 0 | |
msgfParModification-class | 0.001 | 0.000 | 0.001 | |
msgfParModificationList-class | 0.000 | 0.003 | 0.003 | |
msgfParNtt-class | 0 | 0 | 0 | |
msgfParProtocol-class | 0.003 | 0.000 | 0.003 | |
msgfParTda-class | 0.000 | 0.001 | 0.000 | |
msgfParTolerance-class | 0.000 | 0.001 | 0.001 | |
ntt | 0.000 | 0.001 | 0.002 | |
protocol | 0.006 | 0.000 | 0.006 | |
runMSGF | 0.001 | 0.000 | 0.000 | |
tda | 0.000 | 0.002 | 0.001 | |
tolerance | 0.001 | 0.001 | 0.002 | |