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This page was generated on 2024-05-20 11:36:25 -0400 (Mon, 20 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4751
palomino3Windows Server 2022 Datacenterx644.4.0 (2024-04-24 ucrt) -- "Puppy Cup" 4485
lconwaymacOS 12.7.1 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 4515
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

Package 1678/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RareVariantVis 2.32.0  (landing page)
Tomasz Stokowy
Snapshot Date: 2024-05-19 14:00:13 -0400 (Sun, 19 May 2024)
git_url: https://git.bioconductor.org/packages/RareVariantVis
git_branch: RELEASE_3_19
git_last_commit: f7dd347
git_last_commit_date: 2024-04-30 10:44:10 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 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
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.6.5 Ventura / arm64see weekly results here

CHECK results for RareVariantVis on nebbiolo1


To the developers/maintainers of the RareVariantVis package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RareVariantVis.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: RareVariantVis
Version: 2.32.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:RareVariantVis.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings RareVariantVis_2.32.0.tar.gz
StartedAt: 2024-05-20 02:01:57 -0400 (Mon, 20 May 2024)
EndedAt: 2024-05-20 02:07:24 -0400 (Mon, 20 May 2024)
EllapsedTime: 326.9 seconds
RetCode: 0
Status:   OK  
CheckDir: RareVariantVis.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:RareVariantVis.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings RareVariantVis_2.32.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/RareVariantVis.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘RareVariantVis/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RareVariantVis’ version ‘2.32.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘RareVariantVis’ 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 code 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 loading without being on the library search path ... 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                user system elapsed
chromosomeVis 18.467  0.927   20.08
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

RareVariantVis.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL RareVariantVis
###
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* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘RareVariantVis’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘phastCons100way.UCSC.hg19’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘phastCons100way.UCSC.hg19’
** testing if installed package can be loaded from final location
Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘phastCons100way.UCSC.hg19’
** testing if installed package keeps a record of temporary installation path
* DONE (RareVariantVis)

Tests output


Example timings

RareVariantVis.Rcheck/RareVariantVis-Ex.timings

nameusersystemelapsed
callHomozygous0.0000.0000.001
chromosomeVis18.467 0.92720.080
getCrisprGuides0.6430.1280.772
movingAverage0.0000.0000.001
multipleVis0.0510.0060.059
rareVariantVis0.1860.0160.203