Back to Multiple platform build/check report for BioC 3.15
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This page was generated on 2022-10-19 13:21:08 -0400 (Wed, 19 Oct 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.5 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4386
palomino3Windows Server 2022 Datacenterx644.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" 4138
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4205
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for baySeq on palomino3


To the developers/maintainers of the baySeq package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/baySeq.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 127/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
baySeq 2.30.0  (landing page)
Thomas J. Hardcastle
Snapshot Date: 2022-10-18 13:55:19 -0400 (Tue, 18 Oct 2022)
git_url: https://git.bioconductor.org/packages/baySeq
git_branch: RELEASE_3_15
git_last_commit: 96bbf7d
git_last_commit_date: 2022-04-26 11:03:44 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: baySeq
Version: 2.30.0
Command: F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:baySeq.install-out.txt --library=F:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings baySeq_2.30.0.tar.gz
StartedAt: 2022-10-18 22:11:19 -0400 (Tue, 18 Oct 2022)
EndedAt: 2022-10-18 22:14:52 -0400 (Tue, 18 Oct 2022)
EllapsedTime: 212.5 seconds
RetCode: 0
Status:   OK  
CheckDir: baySeq.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:baySeq.install-out.txt --library=F:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings baySeq_2.30.0.tar.gz
###
##############################################################################
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* using log directory 'F:/biocbuild/bbs-3.15-bioc/meat/baySeq.Rcheck'
* using R version 4.2.1 (2022-06-23 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'baySeq/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'baySeq' version '2.30.0'
* 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 whether package 'baySeq' 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 sizes of PDF files under 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                user system elapsed
baySeq-package 40.89   1.17   42.06
getPriors      28.76   0.36   29.12
getLikelihoods 12.28   0.27   12.55
* 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


Installation output

baySeq.Rcheck/00install.out

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###
### Running command:
###
###   F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL baySeq
###
##############################################################################
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* installing to library 'F:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'baySeq' ...
** using staged installation
** R
** data
** 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 (baySeq)

Tests output


Example timings

baySeq.Rcheck/baySeq-Ex.timings

nameusersystemelapsed
allModels0.520.000.52
baySeq-classes0.150.020.18
baySeq-package40.89 1.1742.06
bimodalSep0.010.000.02
densityFunction000
getLibsizes0.020.000.01
getLikelihoods12.28 0.2712.55
getPosteriors0.020.000.02
getPriors28.76 0.3629.12
getTPs000
makeOrderings0.050.000.05
marginaliseEqual0.390.000.39
marginalisePairwise0.360.000.36
plotMA.CD0.030.000.03
plotPosteriors0.060.000.06
plotPriors0.050.000.05
selectTop0.030.000.03
summarisePosteriors000
topCounts0.020.000.01