Back to Build/check report for BioC 3.16 experimental data
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This page was generated on 2022-06-30 14:50:27 -0400 (Thu, 30 Jun 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" 4343
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 HDCytoData on nebbiolo2


To the developers/maintainers of the HDCytoData package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 166/407HostnameOS / ArchINSTALLBUILDCHECK
HDCytoData 1.17.0  (landing page)
Lukas M. Weber
Snapshot Date: 2022-06-30 07:30:01 -0400 (Thu, 30 Jun 2022)
git_url: https://git.bioconductor.org/packages/HDCytoData
git_branch: master
git_last_commit: ee2bba2
git_last_commit_date: 2022-04-26 13:30:17 -0400 (Tue, 26 Apr 2022)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: HDCytoData
Version: 1.17.0
Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:HDCytoData.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/library --no-vignettes --timings HDCytoData_1.17.0.tar.gz
StartedAt: 2022-06-30 11:24:51 -0400 (Thu, 30 Jun 2022)
EndedAt: 2022-06-30 11:28:21 -0400 (Thu, 30 Jun 2022)
EllapsedTime: 210.3 seconds
RetCode: 0
Status:   OK  
CheckDir: HDCytoData.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:HDCytoData.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/library --no-vignettes --timings HDCytoData_1.17.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.16-data-experiment/meat/HDCytoData.Rcheck’
* using R version 4.2.0 Patched (2022-06-02 r82447)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘HDCytoData/DESCRIPTION’ ... OK
* this is package ‘HDCytoData’ version ‘1.17.0’
* 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 ‘HDCytoData’ 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                user system elapsed
Samusik_all_SE 7.284  0.917   8.368
* 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

HDCytoData.Rcheck/00install.out

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### Running command:
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###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL HDCytoData
###
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* installing to library ‘/home/biocbuild/bbs-3.16-bioc/R/library’
* installing *source* package ‘HDCytoData’ ...
** using staged installation
** 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 from temporary location
snapshotDate(): 2022-06-29
** testing if installed package can be loaded from final location
snapshotDate(): 2022-06-29
** testing if installed package keeps a record of temporary installation path
* DONE (HDCytoData)

Tests output


Example timings

HDCytoData.Rcheck/HDCytoData-Ex.timings

nameusersystemelapsed
Bodenmiller_BCR_XL_SE3.9060.4044.532
Krieg_Anti_PD_1_SE2.1450.2602.571
Levine_13dim_SE1.4740.1601.819
Levine_32dim_SE2.6300.3003.093
Mosmann_rare_SE2.5860.2683.051
Nilsson_rare_SE1.2520.1401.589
Samusik_01_SE1.6850.1882.079
Samusik_all_SE7.2840.9178.368
Weber_AML_sim_main_5pc_SE2.4120.2122.787
Weber_BCR_XL_sim_main_SE1.6180.0951.878