Craig McLean
| Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021) |
| git_url: https://git.bioconductor.org/packages/Autotuner |
| git_branch: RELEASE_3_13 |
| git_last_commit: f373bec |
| git_last_commit_date: 2021-05-19 12:45:03 -0400 (Wed, 19 May 2021) |
| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:05:35 -0400 (Fri, 15 Oct 2021).
|
To the developers/maintainers of the Autotuner package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Autotuner.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 103/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| Autotuner 1.6.0 (landing page) Craig McLean
| 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: Autotuner |
| Version: 1.6.0 |
| Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:Autotuner.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings Autotuner_1.6.0.tar.gz |
| StartedAt: 2021-10-14 08:54:57 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 08:57:30 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 153.0 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: Autotuner.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:Autotuner.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings Autotuner_1.6.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/Autotuner.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (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 ‘1.6.0’
* 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 LazyData ... 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 6.402 0.41 6.803
* 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: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL Autotuner ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/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 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 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("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 objects are masked from 'package:base':
I, expand.grid, unname
Loading required package: ProtGenerics
Attaching package: 'ProtGenerics'
The following object is masked from 'package:stats':
smooth
This is MSnbase version 2.18.0
Visit https://lgatto.github.io/MSnbase/ to get started.
Attaching package: 'MSnbase'
The following object is masked from 'package:base':
trimws
____________________________________________________________
/ __ / / / /__ __/ _ /__ __/ / / /\ / / ____/ __ /
/ / / / / / / / / / / / / / / / / / / \ / / /___/ /_/ /
/ /_/ / / / / / / / / / / / / / / / / /\ \ / / ____/ _ \
/ __ / /_/ / / / / /_/ / / / / /_/ / / \ / /__/ / / /
/_/ /_/_____/ /_/ /_____/ /_/ /_____/_/ \ /_____/__/ /__/ v.1.6.0
https://github.com/crmclean/autotuner
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 69 ]
>
> proc.time()
user system elapsed
45.905 1.717 47.604
Autotuner.Rcheck/Autotuner-Ex.timings
| name | user | system | elapsed | |
| ThresholdingAlgo | 0.079 | 0.004 | 0.083 | |
| createAutotuner | 6.402 | 0.410 | 6.803 | |
| getAutoFactorCol | 0.004 | 0.000 | 0.004 | |
| getAutoFile_col | 0.003 | 0.000 | 0.004 | |
| getAutoFile_paths | 0.000 | 0.003 | 0.003 | |
| getAutoIntensity | 0.004 | 0.000 | 0.003 | |
| getAutoMetadata | 0.004 | 0.000 | 0.003 | |
| getAutoPeak_difference | 0.004 | 0.000 | 0.003 | |
| getAutoPeak_table | 0.004 | 0.000 | 0.003 | |
| getAutoPeaks | 0.004 | 0.000 | 0.003 | |
| getAutoTime | 0.003 | 0.000 | 0.003 | |
| isolatePeaks | 0.325 | 0.091 | 0.416 | |
| plot_peaks | 0.013 | 0.000 | 0.013 | |
| plot_signals | 0.201 | 0.004 | 0.205 | |
| returnParams | 0.009 | 0.000 | 0.009 | |
| setAutoFactorCol | 0.009 | 0.000 | 0.009 | |
| setAutoFile_col | 0.004 | 0.000 | 0.004 | |
| setAutoFile_paths | 0.003 | 0.000 | 0.004 | |
| setAutoIntensity | 0.003 | 0.000 | 0.004 | |
| setAutoMetadata | 0.003 | 0.000 | 0.004 | |
| setAutoPeak_difference | 0.004 | 0.000 | 0.004 | |
| setAutoPeak_table | 0.003 | 0.000 | 0.003 | |
| setAutoPeaks | 0.000 | 0.003 | 0.003 | |
| setAutoTime | 0.003 | 0.001 | 0.003 | |