Thomas Lin Pedersen
| Snapshot Date: 2019-04-15 17:01:12 -0400 (Mon, 15 Apr 2019) |
| URL: https://git.bioconductor.org/packages/MSGFplus |
| Branch: RELEASE_3_8 |
| Last Commit: 62a4a5d |
| Last Changed Date: 2019-01-04 13:40:39 -0400 (Fri, 04 Jan 2019) |
| Back to Multiple platform build/check report for BioC 3.8 |
|
This page was generated on 2019-04-16 11:50:51 -0400 (Tue, 16 Apr 2019).
| Package 1007/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| MSGFplus 1.16.1 Thomas Lin Pedersen
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: MSGFplus |
| Version: 1.16.1 |
| Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:MSGFplus.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings MSGFplus_1.16.1.tar.gz |
| StartedAt: 2019-04-16 01:36:57 -0400 (Tue, 16 Apr 2019) |
| EndedAt: 2019-04-16 01:37:29 -0400 (Tue, 16 Apr 2019) |
| EllapsedTime: 32.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: MSGFplus.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:MSGFplus.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings MSGFplus_1.16.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.8-bioc/meat/MSGFplus.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 ‘MSGFplus/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘MSGFplus’ version ‘1.16.1’ * 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-3.8-bioc/meat/MSGFplus.Rcheck/00check.log’ for details.
MSGFplus.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL MSGFplus ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’ * installing *source* package ‘MSGFplus’ ... ** 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 (MSGFplus)
MSGFplus.Rcheck/tests/test-all.Rout
R version 3.5.3 (2019-03-11) -- "Great Truth"
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
1.268 0.060 1.346
MSGFplus.Rcheck/MSGFplus-Ex.timings
| name | user | system | elapsed | |
| chargeRange | 0.004 | 0.000 | 0.004 | |
| db | 0.000 | 0.000 | 0.002 | |
| enzyme | 0.012 | 0.000 | 0.013 | |
| fragmentation | 0.008 | 0.000 | 0.009 | |
| getMSGFpar | 0.000 | 0.008 | 0.011 | |
| instrument | 0.004 | 0.000 | 0.007 | |
| isotopeError | 0.004 | 0.000 | 0.003 | |
| lengthRange | 0.004 | 0.000 | 0.003 | |
| matches | 0.004 | 0.000 | 0.002 | |
| mods | 0.004 | 0.000 | 0.004 | |
| msgfAsync-class | 0 | 0 | 0 | |
| msgfPar-class | 0.004 | 0.004 | 0.008 | |
| msgfPar | 0.028 | 0.000 | 0.027 | |
| msgfParChargeRange-class | 0.000 | 0.000 | 0.001 | |
| msgfParEnzyme-class | 0.000 | 0.004 | 0.004 | |
| msgfParFragmentation-class | 0.004 | 0.000 | 0.004 | |
| msgfParFromID | 0 | 0 | 0 | |
| msgfParGUI | 0.000 | 0.000 | 0.001 | |
| msgfParInstrument-class | 0.004 | 0.000 | 0.004 | |
| msgfParIsotopeError-class | 0 | 0 | 0 | |
| msgfParLengthRange-class | 0 | 0 | 0 | |
| msgfParMatches-class | 0.000 | 0.000 | 0.001 | |
| msgfParModification-class | 0.000 | 0.000 | 0.002 | |
| msgfParModificationList-class | 0.000 | 0.004 | 0.003 | |
| msgfParNtt-class | 0.004 | 0.000 | 0.000 | |
| msgfParProtocol-class | 0.004 | 0.000 | 0.004 | |
| msgfParTda-class | 0.000 | 0.000 | 0.001 | |
| msgfParTolerance-class | 0.000 | 0.000 | 0.001 | |
| ntt | 0.000 | 0.000 | 0.002 | |
| protocol | 0.004 | 0.004 | 0.007 | |
| runMSGF | 0 | 0 | 0 | |
| tda | 0.000 | 0.000 | 0.002 | |
| tolerance | 0.000 | 0.004 | 0.003 | |