Craig McLean
| Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021) |
| URL: https://git.bioconductor.org/packages/Autotuner |
| Branch: RELEASE_3_12 |
| Last Commit: 9d402d7 |
| Last Changed Date: 2020-10-27 11:47:39 -0400 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.12 |
|
This page was generated on 2021-05-06 12:34:21 -0400 (Thu, 06 May 2021).
|
To the developers/maintainers of the Autotuner package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 103/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| Autotuner 1.4.0 (landing page) Craig McLean
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: Autotuner |
| Version: 1.4.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:Autotuner.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings Autotuner_1.4.0.tar.gz |
| StartedAt: 2021-05-05 23:21:49 -0400 (Wed, 05 May 2021) |
| EndedAt: 2021-05-05 23:25:56 -0400 (Wed, 05 May 2021) |
| EllapsedTime: 247.0 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: Autotuner.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:Autotuner.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings Autotuner_1.4.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.12-bioc/meat/Autotuner.Rcheck’
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Autotuner/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Autotuner’ version ‘1.4.0’
* package encoding: UTF-8
* 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 ‘Autotuner’ 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 ... 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 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
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
createAutotuner 7.047 0.464 7.523
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.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: OK
Autotuner.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL Autotuner ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’ * installing *source* package ‘Autotuner’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (Autotuner)
Autotuner.Rcheck/tests/testthat.Rout
R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (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("Autotuner")
Loading required package: Autotuner
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unsplit, which.max, which.min
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: MSnbase
Loading required package: mzR
Loading required package: Rcpp
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Loading required package: ProtGenerics
Attaching package: 'ProtGenerics'
The following object is masked from 'package:stats':
smooth
This is MSnbase version 2.16.1
Visit https://lgatto.github.io/MSnbase/ to get started.
Attaching package: 'MSnbase'
The following object is masked from 'package:base':
trimws
____________________________________________________________
/ __ / / / /__ __/ _ /__ __/ / / /\ / / ____/ __ /
/ / / / / / / / / / / / / / / / / / / \ / / /___/ /_/ /
/ /_/ / / / / / / / / / / / / / / / / /\ \ / / ____/ _ \
/ __ / /_/ / / / / /_/ / / / / /_/ / / \ / /__/ / / /
/_/ /_/_____/ /_/ /_____/ /_/ /_____/_/ \ /_____/__/ /__/ v.1.4.0
https://github.com/crmclean/autotuner
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 69 ]
>
> proc.time()
user system elapsed
77.943 1.797 79.951
Autotuner.Rcheck/Autotuner-Ex.timings
| name | user | system | elapsed | |
| ThresholdingAlgo | 0.161 | 0.012 | 0.174 | |
| createAutotuner | 7.047 | 0.464 | 7.523 | |
| getAutoFactorCol | 0.005 | 0.001 | 0.006 | |
| getAutoFile_col | 0.004 | 0.000 | 0.005 | |
| getAutoFile_paths | 0.005 | 0.000 | 0.005 | |
| getAutoIntensity | 0.005 | 0.000 | 0.005 | |
| getAutoMetadata | 0.005 | 0.000 | 0.005 | |
| getAutoPeak_difference | 0.005 | 0.001 | 0.006 | |
| getAutoPeak_table | 0.004 | 0.001 | 0.005 | |
| getAutoPeaks | 0.005 | 0.000 | 0.005 | |
| getAutoTime | 0.005 | 0.000 | 0.006 | |
| isolatePeaks | 0.588 | 0.105 | 0.692 | |
| plot_peaks | 0.016 | 0.001 | 0.017 | |
| plot_signals | 0.184 | 0.008 | 0.192 | |
| returnParams | 0.008 | 0.001 | 0.010 | |
| setAutoFactorCol | 0.005 | 0.000 | 0.005 | |
| setAutoFile_col | 0.004 | 0.000 | 0.006 | |
| setAutoFile_paths | 0.008 | 0.000 | 0.008 | |
| setAutoIntensity | 0.005 | 0.000 | 0.005 | |
| setAutoMetadata | 0.004 | 0.000 | 0.006 | |
| setAutoPeak_difference | 0.005 | 0.001 | 0.005 | |
| setAutoPeak_table | 0.005 | 0.000 | 0.006 | |
| setAutoPeaks | 0.005 | 0.001 | 0.005 | |
| setAutoTime | 0.005 | 0.001 | 0.005 | |